PDB_ID PUBMED_CID STRUCTURE TITLE DEPOSITION DATE RELEASE DATE AUTHORS CITATION TITLE JOURNAL YEAR VOLUME FIRST PAGE LAST PAGE 3VH2 22055191 Crystal structure of Saccharomyces cerevisiae Atg7 (1-613) 2011-08-23 2011-09-21 Noda, N.N.,Satoo, K.,Fujioka, Y.,Kumeta, H.,Ogura, K.,Nakatogawa, H.,Ohsumi, Y.,Inagaki, F. Structural basis of Atg8 activation by a homodimeric E1, Atg7. Mol.Cell 2011 44 462 475 3AV8 21760931 Refined Structure of Plant-type [2Fe-2S] Ferredoxin I from Aphanothece sacrum at 1.46 A Resolution 2011-02-28 2012-01-11 Kameda, H.,Hirabayashi, K.,Wada, K.,Fukuyama, K. Mapping of protein-protein interaction sites in the plant-type [2Fe-2S] ferredoxin. Plos One 2011 6 0 0 3VLB 22496365 Crystal structure of xeg-edgp 2011-11-30 2012-04-18 Yoshizawa, T.,Shimizu, T.,Hirano, H.,Sato, M.,Hashimoto, H. Structural basis for inhibition of xyloglucan-specific endo-beta-1,4-glucanase (XEG) by XEG-protein inhibitor J.Biol.Chem. 2012 287 18710 18716 3VQ2 22532668 Crystal structure of mouse TLR4/MD-2/LPS complex 2012-03-17 2012-05-09 Ohto, U.,Fukase, K.,Miyake, K.,Shimizu, T. Structural basis of species-specific endotoxin sensing by innate immune receptor TLR4/MD-2 Proc.Natl.Acad.Sci.USA 2012 109 7421 7426 3VMF 22772989 Archaeal protein 2011-12-12 2012-07-25 Kobayashi, K.,Saito, K.,Ishitani, R.,Ito, K.,Nureki, O. Structural basis for translation termination by archaeal RF1 and GTP-bound EF1alpha complex Nucleic Acids Res. 2012 40 9319 9328 3VTA 22841692 Crystal Structure of cucumisin, a subtilisin-like endoprotease from Cucumis melo L 2012-05-23 2012-08-08 Murayama, K.,Kato-Murayama, M.,Hosaka, T.,Sotokawauchi, A.,Yokoyama, S.,Arima, K.,Shirouzu, M. Crystal structure of cucumisin, a subtilisin-like endoprotease from Cucumis melo L J.Mol.Biol. 2012 423 386 396 3VU7 22859296 Crystal structure of REV1-REV7-REV3 ternary complex 2012-06-20 2012-08-08 Kikuchi, S.,Hara, K.,Shimizu, T.,Sato, M.,Hashimoto, H. Structural basis of recruitment of DNA polymerase [zeta] by interaction between REV1 and REV7 proteins J.Biol.Chem. 2012 287 33847 33852 4G8A 23055527 Crystal structure of human TLR4 polymorphic variant D299G and T399I in complex with MD-2 and LPS 2012-07-23 2012-10-17 Ohto, U.,Yamakawa, N.,Akashi-Takamura, S.,Miyake, K.,Shimizu, T. Structural analyses of human Toll-like receptor 4 polymorphisms D299G and T399I J.Biol.Chem. 2012 287 40611 40617 4GEL 23064230 Crystal structure of Zucchini 2012-08-02 2012-10-17 Nishimasu, H.,Ishizu, H.,Saito, K.,Fukuhara, S.,Kamatani, M.K.,Bonnefond, L.,Matsumoto, N.,Nishizawa, T.,Nakanaga, K.,Aoki, J.,Ishitani, R.,Siomi, H.,Siomi, M.C.,Nureki, O. Structure and function of Zucchini endoribonuclease in piRNA biogenesis Nature 2012 491 284 287 4GEM 23064230 Crystal structure of Zucchini (K171A) 2012-08-02 2012-10-17 Nishimasu, H.,Ishizu, H.,Saito, K.,Fukuhara, S.,Kamatani, M.K.,Bonnefond, L.,Matsumoto, N.,Nishizawa, T.,Nakanaga, K.,Aoki, J.,Ishitani, R.,Siomi, H.,Siomi, M.C.,Nureki, O. Structure and function of Zucchini endoribonuclease in piRNA biogenesis Nature 2012 491 284 287 4GEN 23064230 Crystal structure of Zucchini (monomer) 2012-08-02 2012-10-17 Nishimasu, H.,Ishizu, H.,Saito, K.,Fukuhara, S.,Kamatani, M.K.,Bonnefond, L.,Matsumoto, N.,Nishizawa, T.,Nakanaga, K.,Aoki, J.,Ishitani, R.,Siomi, H.,Siomi, M.C.,Nureki, O. Structure and function of Zucchini endoribonuclease in piRNA biogenesis Nature 2012 491 284 287 4GTW 23027977 Crystal structure of mouse Enpp1 in complex with AMP 2012-08-29 2012-11-07 Kato, K.,Nishimasu, H.,Okudaira, S.,Mihara, E.,Ishitani, R.,Takagi, J.,Aoki, J.,Nureki, O. Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling. Proc.Natl.Acad.Sci.USA 2012 109 16876 16881 4GTX 23027977 Crystal structure of mouse Enpp1 in complex with TMP 2012-08-29 2012-11-07 Kato, K.,Nishimasu, H.,Okudaira, S.,Mihara, E.,Ishitani, R.,Takagi, J.,Aoki, J.,Nureki, O. Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling. Proc.Natl.Acad.Sci.USA 2012 109 16876 16881 4GTY 23027977 Crystal structure of mouse Enpp1 in complex with GMP 2012-08-29 2012-11-07 Kato, K.,Nishimasu, H.,Okudaira, S.,Mihara, E.,Ishitani, R.,Takagi, J.,Aoki, J.,Nureki, O. Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling. Proc.Natl.Acad.Sci.USA 2012 109 16876 16881 4GTZ 23027977 Crystal structure of mouse Enpp1 in complex with CMP 2012-08-29 2012-11-07 Kato, K.,Nishimasu, H.,Okudaira, S.,Mihara, E.,Ishitani, R.,Takagi, J.,Aoki, J.,Nureki, O. Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling. Proc.Natl.Acad.Sci.USA 2012 109 16876 16881 3VRH 23444054 Crystal structure of ph0300 2012-04-10 2013-03-13 Nakagawa, H.,Kuratani, M.,Goto-Ito, S.,Ito, T.,Katsura, K.,Terada, T.,Shirouzu, M.,Sekine, S.I.,Shigi, N.,Yokoyama, S. Crystallographic and mutational studies on the tRNA thiouridine synthetase TtuA. Proteins 2013 0 0 0 4IJ5 23479726 Crystal Structure of a Novel-type Phosphoserine Phosphatase from Hydrogenobacter thermophilus TK-6 2012-12-21 2013-03-20 Chiba, Y.,Horita, S.,Ohtsuka, J.,Arai, H.,Nagata, K.,Igarashi, Y.,Tanokura, M.,Ishii, M. Structural units important for activity of a novel-type phosphoserine phosphatase from Hydrogenobacter thermophilus TK-6 revealed by crystal structure analysis J.Biol.Chem. 2013 288 11448 11458 3VV0 23519668 Crystal structure of histone methyltransferase SET7/9 in complex with DAAM-3 2012-07-10 2013-03-27 Niwa, H.,Handa, N.,Tomabechi, Y.,Honda, K.,Toyama, M.,Ohsawa, N.,Shirouzu, M.,Kagechika, H.,Hirano, T.,Umehara, T.,Yokoyama, S. Structures of histone methyltransferase SET7/9 in complexes with adenosylmethionine derivatives Acta Crystallogr.,Sect.D 2013 69 595 602 3VVN 23535598 Crystal structure of MATE in the straight conformation 2012-07-27 2013-04-03 Tanaka, Y.,Hipolito, C.J.,Maturana, A.D.,Ito, K.,Kuroda, T.,Higuchi, T.,Katoh, T.,Kato, H.E.,Hattori, M.,Kumazaki, K.,Tsukazaki, T.,Ishitani, R.,Suga, H.,Nureki, O. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Nature 2013 496 247 251 3VVO 23535598 Crystal structure of MATE in the bent conformation 2012-07-27 2013-04-03 Tanaka, Y.,Hipolito, C.J.,Maturana, A.D.,Ito, K.,Kuroda, T.,Higuchi, T.,Katoh, T.,Kato, H.E.,Hattori, M.,Kumazaki, K.,Tsukazaki, T.,Ishitani, R.,Suga, H.,Nureki, O. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Nature 2013 496 247 251 3VVP 23535598 Crystal structure of MATE in complex with Br-NRF 2012-07-27 2013-04-03 Tanaka, Y.,Hipolito, C.J.,Maturana, A.D.,Ito, K.,Kuroda, T.,Higuchi, T.,Katoh, T.,Kato, H.E.,Hattori, M.,Kumazaki, K.,Tsukazaki, T.,Ishitani, R.,Suga, H.,Nureki, O. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Nature 2013 496 247 251 3VVR 23535598 Crystal structure of MATE in complex with MaD5 2012-07-27 2013-04-03 Tanaka, Y.,Hipolito, C.J.,Maturana, A.D.,Ito, K.,Kuroda, T.,Higuchi, T.,Katoh, T.,Kato, H.E.,Hattori, M.,Kumazaki, K.,Tsukazaki, T.,Ishitani, R.,Suga, H.,Nureki, O. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Nature 2013 496 247 251 3VVS 23535598 Crystal structure of MATE in complex with MaD3S 2012-07-27 2013-04-03 Tanaka, Y.,Hipolito, C.J.,Maturana, A.D.,Ito, K.,Kuroda, T.,Higuchi, T.,Katoh, T.,Kato, H.E.,Hattori, M.,Kumazaki, K.,Tsukazaki, T.,Ishitani, R.,Suga, H.,Nureki, O. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Nature 2013 496 247 251 3W1E 23530206 Structure of FlgT, a flagellar basal body component protein 2012-11-14 2013-04-03 Terashima, H.,Li, N.,Sakuma, M.,Koike, M.,Kojima, S.,Homma, M.,Imada, K. Insight into the assembly mechanism in the supramolecular rings of the sodium-driven Vibrio flagellar motor from the structure of FlgT Proc.Natl.Acad.Sci.USA 2013 110 6133 6138 3W4T 23535598 Crystal structure of MATE P26A mutant 2013-01-16 2013-04-03 Tanaka, Y.,Hipolito, C.J.,Maturana, A.D.,Ito, K.,Kuroda, T.,Higuchi, T.,Katoh, T.,Kato, H.E.,Hattori, M.,Kumazaki, K.,Tsukazaki, T.,Ishitani, R.,Suga, H.,Nureki, O. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Nature 2013 496 247 251 3VRZ 23596204 Crystal structure of HCK complexed with a pyrrolo-pyrimidine inhibitor 1-[4-(4-amino-7-cyclopentyl-7H-pyrrolo[2,3-d]pyrimidin-5-yl)phenyl]-3-benzylurea 2012-04-21 2013-05-01 Saito, Y.,Yuki, H.,Kuratani, M.,Hashizume, Y.,Takagi, S.,Honma, T.,Tanaka, A.,Shirouzu, M.,Mikuni, J.,Handa, N.,Ogahara, I.,Sone, A.,Najima, Y.,Tomabechi, Y.,Wakiyama, M.,Uchida, N.,Tomizawa-Murasawa, M.,Kaneko, A.,Tanaka, S.,Suzuki, N.,Kajita, H.,Aoki, Y.,Ohara, O.,Shultz, L.D.,Fukami, T.,Goto, T.,Taniguchi, S.,Yokoyama, S.,Ishikawa, F. A Pyrrolo-Pyrimidine Derivative Targets Human Primary AML Stem Cells in Vivo Sci Transl Med 2013 5 0 0 3VS0 23596204 Crystal structure of HCK complexed with a pyrrolo-pyrimidine inhibitor N-[4-(4-amino-7-cyclopentyl-7H-pyrrolo[2,3-d]pyrimidin-5-yl)phenyl]benzamide 2012-04-21 2013-05-01 Saito, Y.,Yuki, H.,Kuratani, M.,Hashizume, Y.,Takagi, S.,Honma, T.,Tanaka, A.,Shirouzu, M.,Mikuni, J.,Handa, N.,Ogahara, I.,Sone, A.,Najima, Y.,Tomabechi, Y.,Wakiyama, M.,Uchida, N.,Tomizawa-Murasawa, M.,Kaneko, A.,Tanaka, S.,Suzuki, N.,Kajita, H.,Aoki, Y.,Ohara, O.,Shultz, L.D.,Fukami, T.,Goto, T.,Taniguchi, S.,Yokoyama, S.,Ishikawa, F. A Pyrrolo-Pyrimidine Derivative Targets Human Primary AML Stem Cells in Vivo Sci Transl Med 2013 5 0 0 3VS1 23596204 Crystal structure of HCK complexed with a pyrrolo-pyrimidine inhibitor 1-[4-(4-amino-7-cyclopentyl-7H-pyrrolo[2,3-d]pyrimidin-5-yl)phenyl]-3-phenylurea 2012-04-21 2013-05-01 Saito, Y.,Yuki, H.,Kuratani, M.,Hashizume, Y.,Takagi, S.,Honma, T.,Tanaka, A.,Shirouzu, M.,Mikuni, J.,Handa, N.,Ogahara, I.,Sone, A.,Najima, Y.,Tomabechi, Y.,Wakiyama, M.,Uchida, N.,Tomizawa-Murasawa, M.,Kaneko, A.,Tanaka, S.,Suzuki, N.,Kajita, H.,Aoki, Y.,Ohara, O.,Shultz, L.D.,Fukami, T.,Goto, T.,Taniguchi, S.,Yokoyama, S.,Ishikawa, F. A Pyrrolo-Pyrimidine Derivative Targets Human Primary AML Stem Cells in Vivo Sci Transl Med 2013 5 0 0 3VS3 23596204 Crystal structure of HCK complexed with a pyrrolo-pyrimidine inhibitor 7-[trans-4-(4-methylpiperazin-1-yl)cyclohexyl]-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine 2012-04-21 2013-05-01 Saito, Y.,Yuki, H.,Kuratani, M.,Hashizume, Y.,Takagi, S.,Honma, T.,Tanaka, A.,Shirouzu, M.,Mikuni, J.,Handa, N.,Ogahara, I.,Sone, A.,Najima, Y.,Tomabechi, Y.,Wakiyama, M.,Uchida, N.,Tomizawa-Murasawa, M.,Kaneko, A.,Tanaka, S.,Suzuki, N.,Kajita, H.,Aoki, Y.,Ohara, O.,Shultz, L.D.,Fukami, T.,Goto, T.,Taniguchi, S.,Yokoyama, S.,Ishikawa, F. A Pyrrolo-Pyrimidine Derivative Targets Human Primary AML Stem Cells in Vivo Sci Transl Med 2013 5 0 0 3VS4 23596204 Crystal structure of HCK complexed with a pyrrolo-pyrimidine inhibitor 5-(4-phenoxyphenyl)-7-(tetrahydro-2H-pyran-4-yl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine 2012-04-21 2013-05-01 Saito, Y.,Yuki, H.,Kuratani, M.,Hashizume, Y.,Takagi, S.,Honma, T.,Tanaka, A.,Shirouzu, M.,Mikuni, J.,Handa, N.,Ogahara, I.,Sone, A.,Najima, Y.,Tomabechi, Y.,Wakiyama, M.,Uchida, N.,Tomizawa-Murasawa, M.,Kaneko, A.,Tanaka, S.,Suzuki, N.,Kajita, H.,Aoki, Y.,Ohara, O.,Shultz, L.D.,Fukami, T.,Goto, T.,Taniguchi, S.,Yokoyama, S.,Ishikawa, F. A Pyrrolo-Pyrimidine Derivative Targets Human Primary AML Stem Cells in Vivo Sci Transl Med 2013 5 0 0 3VS5 23596204 Crystal structure of HCK complexed with a pyrrolo-pyrimidine inhibitor 7-(1-methylpiperidin-4-yl)-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d]pyrimidin-4-amine 2012-04-21 2013-05-01 Saito, Y.,Yuki, H.,Kuratani, M.,Hashizume, Y.,Takagi, S.,Honma, T.,Tanaka, A.,Shirouzu, M.,Mikuni, J.,Handa, N.,Ogahara, I.,Sone, A.,Najima, Y.,Tomabechi, Y.,Wakiyama, M.,Uchida, N.,Tomizawa-Murasawa, M.,Kaneko, A.,Tanaka, S.,Suzuki, N.,Kajita, H.,Aoki, Y.,Ohara, O.,Shultz, L.D.,Fukami, T.,Goto, T.,Taniguchi, S.,Yokoyama, S.,Ishikawa, F. A Pyrrolo-Pyrimidine Derivative Targets Human Primary AML Stem Cells in Vivo Sci Transl Med 2013 5 0 0 3VS6 23596204 Crystal structure of HCK complexed with a pyrazolo-pyrimidine inhibitor tert-butyl {4-[4-amino-1-(propan-2-yl)-1H-pyrazolo[3,4-d]pyrimidin-3-yl]-2-methoxyphenyl}carbamate 2012-04-21 2013-05-01 Saito, Y.,Yuki, H.,Kuratani, M.,Hashizume, Y.,Takagi, S.,Honma, T.,Tanaka, A.,Shirouzu, M.,Mikuni, J.,Handa, N.,Ogahara, I.,Sone, A.,Najima, Y.,Tomabechi, Y.,Wakiyama, M.,Uchida, N.,Tomizawa-Murasawa, M.,Kaneko, A.,Tanaka, S.,Suzuki, N.,Kajita, H.,Aoki, Y.,Ohara, O.,Shultz, L.D.,Fukami, T.,Goto, T.,Taniguchi, S.,Yokoyama, S.,Ishikawa, F. A Pyrrolo-Pyrimidine Derivative Targets Human Primary AML Stem Cells in Vivo Sci Transl Med 2013 5 0 0 3WBN 23535598 Crystal structure of MATE in complex with MaL6 2013-05-20 2013-06-12 Tanaka, Y.,Hipolito, C.J.,Matunara, A.D.,Ito, K.,Kuroda, T.,Higuchi, T.,Kato, T.,Hattori, M.,Kumazaki, K.,Kato, H.E.,Tsukazaki, T.,Ishitani, R.,Suga, H.,Nureki, O. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Nature 2013 496 247 251 4KPP 23704374 Crystal Structure of H+/Ca2+ Exchanger CAX 2013-05-14 2013-06-26 Nishizawa, T.,Kita, S.,Maturana, A.D.,Furuya, N.,Hirata, K.,Kasuya, G.,Ogasawara, S.,Dohmae, N.,Iwamoto, T.,Ishitani, R.,Nureki, O. Structural Basis for the Counter-Transport Mechanism of a H+/Ca2+ Exchanger Science 2013 0 0 0 4IKV 23798427 Crystal structure of peptide transporter POT 2012-12-28 2013-07-10 Doki, S.,Kato, H.E.,Solcan, N.,Iwaki, M.,Koyama, M.,Hattori, M.,Iwase, N.,Tsukazaki, T.,Sugita, Y.,Kandori, H.,Newstead, S.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT Proc.Natl.Acad.Sci.USA 2013 0 0 0 4IKW 23798427 Crystal structure of peptide transporter POT in complex with sulfate 2012-12-28 2013-07-10 Doki, S.,Kato, H.E.,Solcan, N.,Iwaki, M.,Koyama, M.,Hattori, M.,Iwase, N.,Tsukazaki, T.,Sugita, Y.,Kandori, H.,Newstead, S.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT Proc.Natl.Acad.Sci.USA 2013 0 0 0 4IKX 23798427 Crystal structure of peptide transporter POT (E310Q mutant) 2012-12-28 2013-07-10 Doki, S.,Kato, H.E.,Solcan, N.,Iwaki, M.,Koyama, M.,Hattori, M.,Iwase, N.,Tsukazaki, T.,Sugita, Y.,Kandori, H.,Newstead, S.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT Proc.Natl.Acad.Sci.USA 2013 0 0 0 4IKY 23798427 Crystal structure of peptide transporter POT (E310Q mutant) in complex with sulfate 2012-12-28 2013-07-10 Doki, S.,Kato, H.E.,Solcan, N.,Iwaki, M.,Koyama, M.,Hattori, M.,Iwase, N.,Tsukazaki, T.,Sugita, Y.,Kandori, H.,Newstead, S.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT Proc.Natl.Acad.Sci.USA 2013 0 0 0 4IKZ 23798427 Crystal structure of peptide transporter POT (E310Q mutant) in complex with alafosfalin 2012-12-28 2013-07-10 Doki, S.,Kato, H.E.,Solcan, N.,Iwaki, M.,Koyama, M.,Hattori, M.,Iwase, N.,Tsukazaki, T.,Sugita, Y.,Kandori, H.,Newstead, S.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT Proc.Natl.Acad.Sci.USA 2013 0 0 0 3WAW 23688339 Crystal Structure of Autotaxin in Complex with 2BoA 2013-05-09 2013-07-31 Kawaguchi, M.,Okabe, T.,Okudaira, S.,Nishimasu, H.,Ishitani, R.,Kojima, H.,Nureki, O.,Aoki, J.,Nagano, T. Screening and X-ray Crystal Structure-based Optimization of Autotaxin (ENPP2) Inhibitors, Using a Newly Developed Fluorescence Probe Acs Chem.Biol. 2013 8 1713 1721 3WAX 23688339 Crystal Structure of Autotaxin in Complex with 3BoA 2013-05-09 2013-07-31 Kawaguchi, M.,Okabe, T.,Okudaira, S.,Nishimasu, H.,Ishitani, R.,Kojima, H.,Nureki, O.,Aoki, J.,Nagano, T. Screening and X-ray Crystal Structure-based Optimization of Autotaxin (ENPP2) Inhibitors, Using a Newly Developed Fluorescence Probe Acs Chem.Biol. 2013 8 1713 1721 3WAY 23688339 Crystal Structure of Autotaxin in Complex with 4BoA 2013-05-09 2013-07-31 Kawaguchi, M.,Okabe, T.,Okudaira, S.,Nishimasu, H.,Ishitani, R.,Kojima, H.,Nureki, O.,Aoki, J.,Nagano, T. Screening and X-ray Crystal Structure-based Optimization of Autotaxin (ENPP2) Inhibitors, Using a Newly Developed Fluorescence Probe Acs Chem.Biol. 2013 8 1713 1721 3W0J 23462137 Crystal Structure of Rat VDR Ligand Binding Domain in Complex with Novel Nonsecosteroidal Ligands 2012-10-30 2013-10-09 Asano, L.,Ito, I.,Kuwabara, N.,Waku, T.,Yanagisawa, J.,Miyachi, H.,Shimizu, T. Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands. Febs Lett. 2013 587 957 963 3WHD 24101491 C-type lectin, human MCL 2013-08-24 2013-10-23 Furukawa, A.,Kamishikiryo, J.,Mori, D.,Toyonaga, K.,Okabe, Y.,Toji, A.,Kanda, R.,Miyake, Y.,Ose, T.,Yamasaki, S.,Maenaka, K. Structural analysis for glycolipid recognition by the C-type lectins Mincle and MCL Proc.Natl.Acad.Sci.USA 2013 110 17438 17443 3WAK 24127570 Crystal structure of the Archaeoglobus fulgidus oligosaccharyltransferase (O29867_ARCFU) in the apo form 2013-05-03 2013-10-30 Matsumoto, S.,Shimada, A.,Nyirenda, J.,Igura, M.,Kawano, Y.,Kohda, D. Crystal structures of an archaeal oligosaccharyltransferase provide insights into the catalytic cycle of N-linked protein glycosylation Proc.Natl.Acad.Sci.USA 2013 110 17868 17873 3WJL 23744091 Crystal structure of IIb selective Fc variant, Fc(V12), in complex with FcgRIIb 2013-10-11 2013-11-13 Mimoto, F.,Katada, H.,Kadono, S.,Igawa, T.,Kuramochi, T.,Muraoka, M.,Wada, Y.,Haraya, K.,Miyazaki, T.,Hattori, K. Engineered antibody Fc variant with selectively enhanced Fc gamma RIIb binding over both Fc gamma RIIaR131 and Fc gamma RIIaH131. Protein Eng.Des.Sel. 2013 26 589 598 3VU3 24223139 Crystal structure of the Hfq and catalase HPII complex 2012-06-15 2013-11-20 Yonekura, K.,Watanabe, M.,Kageyama, Y.,Hirata, K.,Yamamoto, M.,Maki-Yonekura, S. Post-Transcriptional Regulator Hfq Binds Catalase HPII: Crystal Structure of the Complex Plos One 2013 8 0 0 4L3O 24389023 Crystal Structure of SIRT2 in complex with the macrocyclic peptide S2iL5 2013-06-06 2014-02-19 Yamagata, K.,Goto, Y.,Nishimasu, H.,Morimoto, J.,Ishitani, R.,Dohmae, N.,Takeda, N.,Nagai, R.,Komuro, I.,Suga, H.,Nureki, O. Structural Basis for Potent Inhibition of SIRT2 Deacetylase by a Macrocyclic Peptide Inducing Dynamic Structural Change Structure 2013 22 345 352 4ME6 24440607 Crystal structure of D-alanine-D-alanine ligase A from Xanthomonas oryzae pathovar oryzae with ADP 2013-08-25 2014-02-19 Doan, T.N.N.,Kim, J.K.,Ngo, H.P.T.,Tran, H.T.,Cha, S.S.,Chung, K.M.,Huynh, K.H.,Ahn, Y.J.,Kang, L.W. Crystal structures of d-alanine-d-alanine ligase from Xanthomonas oryzae pv. oryzae alone and in complex with nucleotides Arch.Biochem.Biophys. 2014 0 92 99 4OO8 24529477 Crystal structure of Streptococcus pyogenes Cas9 in complex with guide RNA and target DNA 2014-01-31 2014-02-26 Nishimasu, H.,Ran, F.A.,Hsu, P.D.,Konermann, S.,Shehata, S.I.,Dohmae, N.,Ishitani, R.,Zhang, F.,Nureki, O. Crystal structure of Cas9 in complex with guide RNA and target DNA Cell(Cambridge,Mass.) 2014 156 935 949 3W7N Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with TT2-3-149 2013-03-02 2014-03-05 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Hashimoto, S.,Matsuoka, S.,Kuranaga, T.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with TT2-3-149 To be Published 0 0 0 0 3W85 Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with TT2-3-139 2013-03-12 2014-03-12 Inaoka, D.K.,Iida, M.,Tabuchi, T.,Lee, N.,Hashimoto, S.,Matsuoka, S.,Kuranaga, T.,Shiba, T.,Sakamoto, K.,Suzuki, S.,Balogun, E.O.,Nara, T.,Aoki, T.,Inoue, M.,Honma, T.,Tanaka, A.,Harada, S.,Kita, K. Structure of Trypanosoma cruzi dihydroorotate dehydrogenase in complex with TT2-3-139 To be Published 0 0 0 0 3WOE 24589779 Crystal structure of P23-45 gp39 (6-109) bound to Thermus thermophilus RNA polymerase beta-flap domain 2013-12-26 2014-03-12 Tagami, S.,Sekine, S.,Minakhin, L.,Esyunina, D.,Akasaka, R.,Shirouzu, M.,Kulbachinskiy, A.,Severinov, K.,Yokoyama, S. Structural basis for promoter specificity switching of RNA polymerase by a phage factor. Genes Dev. 2014 28 521 531 3WO6 24739968 Crystal structure of YidC from Bacillus halodurans (form I) 2013-12-20 2014-04-23 Kumazaki, K.,Chiba, S.,Takemoto, M.,Furukawa, A.,Nishiyama, K.,Sugano, Y.,Mori, T.,Dohmae, N.,Hirata, K.,Nakada-Nakura, Y.,Maturana, A.D.,Tanaka, Y.,Mori, H.,Sugita, Y.,Arisaka, F.,Ito, K.,Ishitani, R.,Tsukazaki, T.,Nureki, O. Structural basis of Sec-independent membrane protein insertion by YidC. Nature 2014 509 516 520 3WO7 24739968 Crystal structure of YidC from Bacillus halodurans (form II) 2013-12-20 2014-04-23 Kumazaki, K.,Chiba, S.,Takemoto, M.,Furukawa, A.,Nishiyama, K.,Sugano, Y.,Mori, T.,Dohmae, N.,Hirata, K.,Nakada-Nakura, Y.,Maturana, A.D.,Tanaka, Y.,Mori, H.,Sugita, Y.,Arisaka, F.,Ito, K.,Ishitani, R.,Tsukazaki, T.,Nureki, O. Structural basis of Sec-independent membrane protein insertion by YidC. Nature 2014 509 516 520 4P79 24744376 Crystal structure of mouse claudin-15 2014-03-26 2014-04-30 Suzuki, H.,Nishizawa, T.,Tani, K.,Yamazaki, Y.,Tamura, A.,Ishitani, R.,Dohmae, N.,Tsukita, S.,Nureki, O.,Fujiyoshi, Y. Crystal structure of a claudin provides insight into the architecture of tight junctions. Science 2014 344 304 307 3WAE 24419392 X-ray structure of Fe(III)-bicarbonates-ttfbpa, a ferric ion-binding protein from thermus thermophilus HB8 2013-05-02 2014-05-21 Wang, S.,Ogata, M.,Horita, S.,Ohtsuka, J.,Nagata, K.,Tanokura, M. A novel mode of ferric ion coordination by the periplasmic ferric ion-binding subunit FbpA of an ABC-type iron transporter from Thermus thermophilus HB8. Acta Crystallogr.,Sect.D 2014 70 196 202 3WPX 25197056 Structure of PomBc4, a periplasmic fragment of PomB from Vibrio alginolyticus 2014-01-17 2014-09-10 Zhu, S.,Takao, M.,Li, N.,Sakuma, M.,Nishino, Y.,Homma, M.,Kojima, S.,Imada, K. Conformational change in the periplasmic region of the flagellar stator coupled with the assembly around the rotor Proc. Natl. Acad. Sci. U.S.A. 2014 111 13523 13528 3WVL 25174333 Crystal structure of the football-shaped GroEL-GroES complex (GroEL: GroES2:ATP14) from Escherichia coli 2014-05-23 2014-09-17 Koike-Takeshita, A.,Arakawa, T.,Taguchi, H.,Shimamura, T. Crystal structure of a symmetric football-shaped GroEL:GroES2 complex determined at 3.8 angstrom reveals rearrangement between two GroEL rings. J.Mol.Biol. 2014 0 0 0 4RNG 25378180 Crystal structure of a bacterial homologue of SWEET transporters 2014-10-24 2014-11-19 Wang, J.,Yan, C.,Li, Y.,Hirata, K.,Yamamoto, M.,Yan, N.,Hu, Q. Crystal structure of a bacterial homologue of SWEET transporters. Cell Res. 2014 24 1486 1489 4U9L 25367295 Structure of a membrane protein 2014-08-06 2014-12-03 Takeda, H.,Hattori, M.,Nishizawa, T.,Yamashita, K.,Shah, S.T.,Caffrey, M.,Maturana, A.D.,Ishitani, R.,Nureki, O. Structural basis for ion selectivity revealed by high-resolution crystal structure of Mg(2+) channel MgtE Nat Commun 2014 5 5374 5374 4U9N 25367295 Structure of a membrane protein 2014-08-06 2014-12-03 Takeda, H.,Hattori, M.,Nishizawa, T.,Yamashita, K.,Shah, S.T.,Caffrey, M.,Maturana, A.D.,Ishitani, R.,Nureki, O. Structural basis for ion selectivity revealed by high-resolution crystal structure of Mg(2+) channel MgtE Nat Commun 2014 5 5374 5374 4WIB 25367295 Crystal structure of Magnesium transporter MgtE 2014-09-25 2014-12-03 Takeda, H.,Hattori, M.,Nishizawa, T.,Yamashita, K.,Shah, S.T.,Caffrey, M.,Maturana, A.D.,Ishitani, R.,Nureki, O. Structural basis for ion selectivity revealed by high-resolution crystal structure of Mg(2+) channel MgtE Nat Commun 2014 5 5374 5374 3WVF 25466392 Crystal structure of YidC from Escherichia coli 2014-05-20 2014-12-17 Kumazaki, K.,Kishimoto, T.,Furukawa, A.,Mori, H.,Tanaka, Y.,Dohmae, N.,Ishitani, R.,Tsukazaki, T.,Nureki, O. Crystal structure of Escherichia coli YidC, a membrane protein chaperone and insertase Sci Rep 2014 4 7299 7299 3X29 25678664 CRYSTAL STRUCTURE of MOUSE CLAUDIN-19 IN COMPLEX with C-TERMINAL FRAGMENT OF CLOSTRIDIUM PERFRINGENS ENTEROTOXIN 2014-12-13 2015-01-21 Saitoh, Y.,Suzuki, H.,Tani, K.,Nishikawa, K.,Irie, K.,Ogura, Y.,Tamura, A.,Tsukita, S.,Fujiyoshi, Y. Structural insight into tight junction disassembly by Clostridium perfringens enterotoxin Science 2015 347 775 778 4X5M 25598322 Crystal structure of SemiSWEET in the inward-open conformation 2014-12-05 2015-01-21 Lee, Y.,Nishizawa, T.,Yamashita, K.,Ishitani, R.,Nureki, O. Structural basis for the facilitative diffusion mechanism by SemiSWEET transporter Nat Commun 2015 6 6112 6112 4X5N 25598322 Crystal structure of SemiSWEET in the inward-open and outward-open conformations 2014-12-05 2015-01-21 Lee, Y.,Nishizawa, T.,Yamashita, K.,Ishitani, R.,Nureki, O. Structural basis for the facilitative diffusion mechanism by SemiSWEET transporter Nat Commun 2015 6 6112 6112 4PDN 25274739 Crystal structure of E. coli YfcM 2014-04-19 2015-03-04 Kobayashi, K.,Katz, A.,Rajkovic, A.,Ishii, R.,Branson, O.E.,Freitas, M.A.,Ishitani, R.,Ibba, M.,Nureki, O. The non-canonical hydroxylase structure of YfcM reveals a metal ion-coordination motif required for EF-P hydroxylation. Nucleic Acids Res. 2014 42 12295 12305 3X2S 25646669 Crystal structure of pyrene-conjugated adenylate kinase 2014-12-31 2015-04-01 Fujii, A.,Sekiguchi, Y.,Matsumura, H.,Inoue, T.,Chung, W.S.,Hirota, S.,Matsuo, T. Excimer Emission Properties on Pyrene-Labeled Protein Surface: Correlation between Emission Spectra, Ring Stacking Modes, and Flexibilities of Pyrene Probes. Bioconjug.Chem. 2015 26 537 548 3X3B 25849775 Crystal structure of the light-driven sodium pump KR2 in acidic state 2015-01-18 2015-04-08 Kato, H.E.,Inoue, K.,Abe-Yoshizumi, R.,Kato, Y.,Ono, H.,Konno, M.,Hososhima, S.,Ishizuka, T.,Hoque, M.R.,Kunitomo, H.,Ito, J.,Yoshizawa, S.,Yamashita, K.,Takemoto, M.,Nishizawa, T.,Taniguchi, R.,Kogure, K.,Maturana, A.D.,Iino, Y.,Yawo, H.,Ishitani, R.,Kandori, H.,Nureki, O. Structural basis for Na(+) transport mechanism by a light-driven Na(+) pump Nature 2015 521 48 53 3X3C 25849775 Crystal structure of the light-driven sodium pump KR2 in neutral state 2015-01-18 2015-04-08 Kato, H.E.,Inoue, K.,Abe-Yoshizumi, R.,Kato, Y.,Ono, H.,Konno, M.,Hososhima, S.,Ishizuka, T.,Hoque, M.R.,Kunitomo, H.,Ito, J.,Yoshizawa, S.,Yamashita, K.,Takemoto, M.,Nishizawa, T.,Taniguchi, R.,Kogure, K.,Maturana, A.D.,Iino, Y.,Yawo, H.,Ishitani, R.,Kandori, H.,Nureki, O. Structural basis for Na(+) transport mechanism by a light-driven Na(+) pump Nature 2015 521 48 53 4YBG 25865890 Crystal structure of the MAEL domain of Drosophila melanogaster Maelstrom 2015-02-18 2015-04-29 Matsumoto, N.,Sato, K.,Nishimasu, H.,Namba, Y.,Miyakubi, K.,Dohmae, N.,Ishitani, R.,Siomi, H.,Siomi, M.C.,Nureki, O. Crystal Structure and Activity of the Endoribonuclease Domain of the piRNA Pathway Factor Maelstrom Cell Rep 2015 11 366 375 4YZI 25975962 Crystal structure of blue-shifted channelrhodopsin mutant (T198G/G202A) 2015-03-25 2015-05-27 Kato, H.E.,Kamiya, M.,Sugo, S.,Ito, J.,Taniguchi, R.,Orito, A.,Hirata, K.,Inutsuka, A.,Yamanaka, A.,Maturana, A.D.,Ishitani, R.,Sudo, Y.,Hayashi, S.,Nureki, O. Atomistic design of microbial opsin-based blue-shifted optogenetics tools. Nat Commun 2015 6 7177 7177 3WZ3 26039110 Structure of a periplasmic fragment of TraM 2014-09-18 2015-06-10 Kuroda, T.,Kubori, T.,Thanh Bui, X.,Hyakutake, A.,Uchida, Y.,Imada, K.,Nagai, H. Molecular and structural analysis of Legionella DotI gives insights into an inner membrane complex essential for type IV secretion Sci Rep 2015 5 10912 10912 4U4T 25959928 Structure of a nitrate/nitrite antiporter NarK in nitrate-bound inward-open state 2014-07-24 2015-07-15 Fukuda, M.,Takeda, H.,Kato, H.E.,Doki, S.,Ito, K.,Maturana, A.D.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of nitrate/nitrite antiport by NarK Nat Commun 2015 6 7097 7097 4U4V 25959928 Structure of a nitrate/nitrite antiporter NarK in apo inward-open state 2014-07-24 2015-07-15 Fukuda, M.,Takeda, H.,Kato, H.E.,Doki, S.,Ito, K.,Maturana, A.D.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of nitrate/nitrite antiport by NarK Nat Commun 2015 6 7097 7097 4U4W 25959928 Structure of a nitrate/nitrite antiporter NarK in nitrate-bound occluded state 2014-07-24 2015-07-15 Fukuda, M.,Takeda, H.,Kato, H.E.,Doki, S.,Ito, K.,Maturana, A.D.,Ishitani, R.,Nureki, O. Structural basis for dynamic mechanism of nitrate/nitrite antiport by NarK Nat Commun 2015 6 7097 7097 4YVK 26183229 Crystal Structure of H. influenzae TrmD in complex with sinefungin and tRNA variant (G36C) 2015-03-20 2015-07-15 Ito, T.,Masuda, I.,Yoshida, K.,Goto-Ito, S.,Sekine, S.,Suh, S.W.,Hou, Y.M.,Yokoyama, S. Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD. Proc.Natl.Acad.Sci.USA 2015 112 0 0 4ZW9 26176916 Crystal structure of human GLUT3 bound to D-glucose in the outward-occluded conformation at 1.5 angstrom 2015-05-19 2015-07-22 Deng, D.,Sun, P.C.,Yan, C.Y.,Ke, M.,Jiang, X.,Xiong, L.,Ren, W.,Hirata, K.,Yamamoto, M.,Fan, S.,Yan, N. Molecular basis of ligand recognition and transport by glucose transporters Nature 2015 526 391 396 4ZWB 26176916 Crystal structure of maltose-bound human GLUT3 in the outward-occluded conformation at 2.4 angstrom 2015-05-19 2015-07-22 Deng, D.,Sun, P.C.,Yan, C.Y.,Ke, M.,Jiang, X.,Xiong, L.,Ren, W.,Hirata, K.,Yamamoto, M.,Fan, S.,Yan, N. Molecular basis of ligand recognition and transport by glucose transporters Nature 2015 526 391 396 4ZWC 26176916 Crystal structure of maltose-bound human GLUT3 in the outward-open conformation at 2.6 angstrom 2015-05-19 2015-07-22 Deng, D.,Sun, P.C.,Yan, C.Y.,Ke, M.,Jiang, X.,Xiong, L.,Ren, W.,Hirata, K.,Yamamoto, M.,Fan, S.,Yan, N. Molecular basis of ligand recognition and transport by glucose transporters Nature 2015 526 391 396 5AWM 26377800 The Crystal Structure of JNK from Drosophila melanogaster Reveals an Evolutionarily Conserved Topology with that of Mammalian JNK Proteins. 2015-07-06 2015-08-05 Chimnaronk, S.,Sitthiroongruang, J.,Srisucharitpanit, K.,Srisaisup, M.,Ketterman, A.J.,Boonserm, P. The crystal structure of JNK from Drosophila melanogaster reveals an evolutionarily conserved topology with that of mammalian JNK proteins. Bmc Struct.Biol. 2015 15 17 17 5AWZ 26527138 Crystal Structure of the Cell-Free Synthesized Membrane Protein, Acetabularia Rhodopsin I, at 1.57 angstrom 2015-07-10 2015-08-26 Furuse, M.,Tamogami, J.,Hosaka, T.,Kikukawa, T.,Shinya, N.,Hato, M.,Ohsawa, N.,Kim, S.Y.,Jung, K.H.,Demura, M.,Miyauchi, S.,Kamo, N.,Shimono, K.,Kimura-Someya, T.,Yokoyama, S.,Shirouzu, M. Structural basis for the slow photocycle and late proton release in Acetabularia rhodopsin I from the marine plant Acetabularia acetabulum Acta Crystallogr.,Sect.D 2015 71 2203 2216 5AX0 26527138 Crystal Structure of the Cell-Free Synthesized Membrane Protein, Acetabularia Rhodopsin I, at 1.52 angstrom 2015-07-10 2015-08-26 Furuse, M.,Tamogami, J.,Hosaka, T.,Kikukawa, T.,Shinya, N.,Hato, M.,Ohsawa, N.,Kim, S.Y.,Jung, K.H.,Demura, M.,Miyauchi, S.,Kamo, N.,Shimono, K.,Kimura-Someya, T.,Yokoyama, S.,Shirouzu, M. Structural basis for the slow photocycle and late proton release in Acetabularia rhodopsin I from the marine plant Acetabularia acetabulum Acta Crystallogr.,Sect.D 2015 71 2203 2216 5AX1 26527138 Crystal Structure of the Cell-Free Synthesized Membrane Protein, Acetabularia Rhodopsin I, at 1.80 angstrom 2015-07-10 2015-08-26 Furuse, M.,Tamogami, J.,Hosaka, T.,Kikukawa, T.,Shinya, N.,Hato, M.,Ohsawa, N.,Kim, S.Y.,Jung, K.H.,Demura, M.,Miyauchi, S.,Kamo, N.,Shimono, K.,Kimura-Someya, T.,Yokoyama, S.,Shirouzu, M. Structural basis for the slow photocycle and late proton release in Acetabularia rhodopsin I from the marine plant Acetabularia acetabulum Acta Crystallogr.,Sect.D 2015 71 2203 2216 5AYM 26461048 Crystal structure of a bacterial homologue of iron transporter ferroportin in outward-facing state with soaked iron 2015-08-25 2015-11-04 Taniguchi, R.,Kato, H.E.,Font, J.,Deshpande, C.N.,Wada, M.,Ito, K.,Ishitani, R.,Jormakka, M.,Nureki, O. Outward- and inward-facing structures of a putative bacterial transition-metal transporter with homology to ferroportin Nat Commun 2015 6 8545 8545 5AYN 26461048 Crystal structure of a bacterial homologue of iron transporter ferroportin in outward-facing state 2015-08-25 2015-11-04 Taniguchi, R.,Kato, H.E.,Font, J.,Deshpande, C.N.,Wada, M.,Ito, K.,Ishitani, R.,Jormakka, M.,Nureki, O. Outward- and inward-facing structures of a putative bacterial transition-metal transporter with homology to ferroportin Nat Commun 2015 6 8545 8545 5AYO 26461048 Crystal structure of a bacterial homologue of iron transporter ferroportin in inward-facing state 2015-08-25 2015-11-04 Taniguchi, R.,Kato, H.E.,Font, J.,Deshpande, C.N.,Wada, M.,Ito, K.,Ishitani, R.,Jormakka, M.,Nureki, O. Outward- and inward-facing structures of a putative bacterial transition-metal transporter with homology to ferroportin Nat Commun 2015 6 8545 8545 5AXU 26503073 Crystal Structure of Cypovirus Polyhedra R13A Mutant 2015-08-01 2015-11-11 Abe, S.,Ijiri, H.,Negishi, H.,Yamanaka, H.,Sasaki, K.,Hirata, K.,Mori, H.,Ueno, T. Design of Enzyme-Encapsulated Protein Containers by In Vivo Crystal Engineering Adv. Mater. Weinheim 2015 27 7951 7956 5AXV 26503073 Crystal Structure of Cypovirus Polyhedra R13K Mutant 2015-08-01 2015-11-11 Abe, S.,Ijiri, H.,Negishi, H.,Yamanaka, H.,Sasaki, K.,Hirata, K.,Mori, H.,Ueno, T. Design of Enzyme-Encapsulated Protein Containers by In Vivo Crystal Engineering Adv. Mater. Weinheim 2015 27 7951 7956 5AWW 26586438 Precise Resting State of Thermus thermophilus SecYEG 2015-07-10 2015-11-25 Tanaka, Y.,Sugano, Y.,Takemoto, M.,Mori, T.,Furukawa, A.,Kusakizako, T.,Kumazaki, K.,Kashima, A.,Ishitani, R.,Sugita, Y.,Nureki, O.,Tsukazaki, T. Crystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State. Cell Rep 2015 13 1561 1568 5CH4 26586438 Peptide-Bound State of Thermus thermophilus SecYEG 2015-07-10 2015-11-25 Tanaka, Y.,Sugano, Y.,Takemoto, M.,Mori, T.,Furukawa, A.,Kusakizako, T.,Kumazaki, K.,Kashima, A.,Ishitani, R.,Sugita, Y.,Nureki, O.,Tsukazaki, T. Crystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State. Cell Rep 2015 13 1561 1568 5AV5 26607036 human nucleosome core particle 2015-06-11 2015-12-23 Wakamori, M.,Fujii, Y.,Suka, N.,Shirouzu, M.,Sakamoto, K.,Umehara, T.,Yokoyama, S. Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation Sci Rep 2015 5 17204 17204 5AV6 26607036 human nucleosome core particle 2015-06-12 2015-12-23 Wakamori, M.,Fujii, Y.,Suka, N.,Shirouzu, M.,Sakamoto, K.,Umehara, T.,Yokoyama, S. Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation Sci Rep 2015 5 17204 17204 5AV8 26607036 human nucleosome core particle 2015-06-12 2015-12-23 Wakamori, M.,Fujii, Y.,Suka, N.,Shirouzu, M.,Sakamoto, K.,Umehara, T.,Yokoyama, S. Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation Sci Rep 2015 5 17204 17204 5AV9 26607036 human nucleosome core particle 2015-06-12 2015-12-23 Wakamori, M.,Fujii, Y.,Suka, N.,Shirouzu, M.,Sakamoto, K.,Umehara, T.,Yokoyama, S. Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation Sci Rep 2015 5 17204 17204 5AVB 26607036 human nucleosome core particle 2015-06-12 2015-12-23 Wakamori, M.,Fujii, Y.,Suka, N.,Shirouzu, M.,Sakamoto, K.,Umehara, T.,Yokoyama, S. Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation Sci Rep 2015 5 17204 17204 5AVC 26607036 human nucleosome core particle 2015-06-12 2015-12-23 Wakamori, M.,Fujii, Y.,Suka, N.,Shirouzu, M.,Sakamoto, K.,Umehara, T.,Yokoyama, S. Intra- and inter-nucleosomal interactions of the histone H4 tail revealed with a human nucleosome core particle with genetically-incorporated H4 tetra-acetylation Sci Rep 2015 5 17204 17204 5AZG 26687600 Crystal structure of LGG-1 complexed with a UNC-51 peptide 2015-10-05 2015-12-30 Wu, F.,Watanabe, Y.,Guo, X.Y.,Qi, X.,Wang, P.,Zhao, H.Y.,Wang, Z.,Fujioka, Y.,Zhang, H.,Ren, J.Q.,Fang, T.C.,Shen, Y.X.,Feng, W.,Hu, J.J.,Noda, N.N.,Zhang, H. Structural Basis of the Differential Function of the Two C. elegans Atg8 Homologs, LGG-1 and LGG-2, in Autophagy. Mol.Cell 2015 60 914 929 5AZH 26687600 Crystal structure of LGG-2 fused with an EEEWEEL peptide 2015-10-05 2015-12-30 Wu, F.,Watanabe, Y.,Guo, X.Y.,Qi, X.,Wang, P.,Zhao, H.Y.,Wang, Z.,Fujioka, Y.,Zhang, H.,Ren, J.Q.,Fang, T.C.,Shen, Y.X.,Feng, W.,Hu, J.J.,Noda, N.N.,Zhang, H. Structural Basis of the Differential Function of the Two C. elegans Atg8 Homologs, LGG-1 and LGG-2, in Autophagy. Mol.Cell 2015 60 914 929 5AZ6 26694222 Crystal structure of MBP-Tom20 fusion protein with a 2-residue spacer in the connector helix 2015-09-27 2016-01-13 Matsuoka, R.,Shimada, A.,Komuro, Y.,Sugita, Y.,Kohda, D. Rational design of crystal contact-free space in protein crystals for analyzing spatial distribution of motions within protein molecules. Protein Sci. 2016 25 754 768 5AZA 26694222 Crystal structure of MBP-sAglB fusion protein with a 20-residue spacer in the connector helix 2015-09-27 2016-01-13 Matsuoka, R.,Shimada, A.,Komuro, Y.,Sugita, Y.,Kohda, D. Rational design of crystal contact-free space in protein crystals for analyzing spatial distribution of motions within protein molecules. Protein Sci. 2016 25 754 768 4YSO 26769972 Copper nitrite reductase from Geobacillus thermodenitrificans - 0.064 MGy 2015-03-17 2016-02-24 Fukuda, Y.,Tse, K.M.,Suzuki, M.,Diederichs, K.,Hirata, K.,Nakane, T.,Sugahara, M.,Nango, E.,Tono, K.,Joti, Y.,Kameshima, T.,Song, C.,Hatsui, T.,Yabashi, M.,Nureki, O.,Matsumura, H.,Inoue, T.,Iwata, S.,Mizohata, E. Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography J.Biochem. 2016 159 527 538 4YSP 26769972 Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 8.32 MGy 2015-03-17 2016-02-24 Fukuda, Y.,Tse, K.M.,Suzuki, M.,Diederichs, K.,Hirata, K.,Nakane, T.,Sugahara, M.,Nango, E.,Tono, K.,Joti, Y.,Kameshima, T.,Song, C.,Hatsui, T.,Yabashi, M.,Nureki, O.,Matsumura, H.,Inoue, T.,Iwata, S.,Mizohata, E. Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography J.Biochem. 2016 159 527 538 4YSQ 26769972 Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 8.38 MGy 2015-03-17 2016-02-24 Fukuda, Y.,Tse, K.M.,Suzuki, M.,Diederichs, K.,Hirata, K.,Nakane, T.,Sugahara, M.,Nango, E.,Tono, K.,Joti, Y.,Kameshima, T.,Song, C.,Hatsui, T.,Yabashi, M.,Nureki, O.,Matsumura, H.,Inoue, T.,Iwata, S.,Mizohata, E. Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography J.Biochem. 2016 159 527 538 4YSR 26769972 Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 16.6 MGy 2015-03-17 2016-02-24 Fukuda, Y.,Tse, K.M.,Suzuki, M.,Diederichs, K.,Hirata, K.,Nakane, T.,Sugahara, M.,Nango, E.,Tono, K.,Joti, Y.,Kameshima, T.,Song, C.,Hatsui, T.,Yabashi, M.,Nureki, O.,Matsumura, H.,Inoue, T.,Iwata, S.,Mizohata, E. Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography J.Biochem. 2016 159 527 538 4YSS 26769972 Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 16.7 MGy 2015-03-17 2016-02-24 Fukuda, Y.,Tse, K.M.,Suzuki, M.,Diederichs, K.,Hirata, K.,Nakane, T.,Sugahara, M.,Nango, E.,Tono, K.,Joti, Y.,Kameshima, T.,Song, C.,Hatsui, T.,Yabashi, M.,Nureki, O.,Matsumura, H.,Inoue, T.,Iwata, S.,Mizohata, E. Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography J.Biochem. 2016 159 527 538 4YST 26769972 Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 24.9 MGy 2015-03-17 2016-02-24 Fukuda, Y.,Tse, K.M.,Suzuki, M.,Diederichs, K.,Hirata, K.,Nakane, T.,Sugahara, M.,Nango, E.,Tono, K.,Joti, Y.,Kameshima, T.,Song, C.,Hatsui, T.,Yabashi, M.,Nureki, O.,Matsumura, H.,Inoue, T.,Iwata, S.,Mizohata, E. Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography J.Biochem. 2016 159 527 538 4YSU 26769972 Structure of copper nitrite reductase from Geobacillus thermodenitrificans - 25.0 MGy 2015-03-17 2016-02-24 Fukuda, Y.,Tse, K.M.,Suzuki, M.,Diederichs, K.,Hirata, K.,Nakane, T.,Sugahara, M.,Nango, E.,Tono, K.,Joti, Y.,Kameshima, T.,Song, C.,Hatsui, T.,Yabashi, M.,Nureki, O.,Matsumura, H.,Inoue, T.,Iwata, S.,Mizohata, E. Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography J.Biochem. 2016 159 527 538 4YN3 27616715 Crystal structure of Cucumisin complex with pro-peptide 2015-03-09 2016-03-09 Sotokawauchi, A.,Kato-Murayama, M.,Murayama, K.,Hosaka, T.,Maeda, I.,Onjo, M.,Ohsawa, N.,Kato, D.I.,Arima, K.,Shirouzu, M. Structural basis of cucumisin protease activity regulation by its propeptide J. Biochem. 2017 161 45 53 5HRT 27043297 Crystal structure of mouse autotaxin in complex with a DNA aptamer 2016-01-24 2016-04-06 Kato, K.,Ikeda, H.,Miyakawa, S.,Futakawa, S.,Nonaka, Y.,Fujiwara, M.,Okudaira, S.,Kano, K.,Aoki, J.,Morita, J.,Ishitani, R.,Nishimasu, H.,Nakamura, Y.,Nureki, O. Structural basis for specific inhibition of Autotaxin by a DNA aptamer Nat.Struct.Mol.Biol. 2016 23 395 401 5I20 27281193 Crystal structure of protein 2016-02-08 2016-06-01 Tsuchiya, H.,Doki, S.,Takemoto, M.,Ikuta, T.,Higuchi, T.,Fukui, K.,Usuda, Y.,Tabuchi, E.,Nagatoishi, S.,Tsumoto, K.,Nishizawa, T.,Ito, K.,Dohmae, N.,Ishitani, R.,Nureki, O. Structural basis for amino acid export by DMT superfamily transporter YddG. Nature 2016 534 417 420 5B2I 27419055 Human nucleosome containing CpG unmethylated DNA 2016-01-16 2016-06-15 Fujii, Y.,Wakamori, M.,Umehara, T.,Yokoyama, S. Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation. Febs Open Bio 2016 6 498 514 5B2J 27419055 Human nucleosome containing CpG methylated DNA 2016-01-18 2016-06-15 Fujii, Y.,Wakamori, M.,Umehara, T.,Yokoyama, S. Crystal structure of human nucleosome core particle containing enzymatically introduced CpG methylation. Febs Open Bio 2016 6 498 514 5C2K Crystal structure of the fusion protein linked by RhoA and the GAP domain of MgcRacGAP 2015-06-16 2016-06-22 Murayama, K.,Kato-Murayama, M.,Hosaka, T.,kawashima, T.,Kitamura, T.,Yokoyama, S.,Shirouzu, M. Structural basis of G-protein target alternation of MgcRacGAP by phospholylation To Be Published 0 0 0 0 5IRL 27283905 Crystal structure of rabbit NOD2 SER mutant in an ADP-bound state 2016-03-14 2016-06-29 Maekawa, S.,Ohto, U.,Shibata, T.,Miyake, K.,Shimizu, T. Crystal structure of NOD2 and its implications in human disease. Nat Commun 2016 7 11813 11813 5IRM 27283905 Crystal structure of rabbit NOD2 in an ADP-bound state (Crystal form2) 2016-03-14 2016-06-29 Maekawa, S.,Ohto, U.,Shibata, T.,Miyake, K.,Shimizu, T. Crystal structure of NOD2 and its implications in human disease. Nat Commun 2016 7 11813 11813 5AWS 26822536 Crystal structure of the SGIP1 mu homology domain in the P1 space group 2015-07-08 2016-07-06 Shimada, A.,Yamaguchi, A.,Kohda, D. Structural basis for the recognition of two consecutive mutually interacting DPF motifs by the SGIP1 mu homology domain. Sci Rep 2016 6 19565 19565 5B2N 27365396 Crystal structure of the light-driven chloride ion-pumping rhodopsin, ClP, from Nonlabens marinus 2016-01-20 2016-07-13 Hosaka, T.,Yoshizawa, S.,Nakajima, Y.,Ohsawa, N.,Hato, M.,DeLong, E.F.,Kogure, K.,Yokoyama, S.,Kimura-Someya, T.,Iwasaki, W.,Shirouzu, M. Structural Mechanism for Light-driven Transport by a New Type of Chloride Ion Pump, Nonlabens marinus Rhodopsin-3 J.Biol.Chem. 2016 291 17488 17495 5AX9 27562646 Crystal structure of the kinase domain of human TRAF2 and NCK-interacting protein kinase in complex with compund 9 2015-07-21 2016-07-27 Masuda, M.,Uno, Y.,Ohbayashi, N.,Ohata, H.,Mimata, A.,Kukimoto-Niino, M.,Moriyama, H.,Kashimoto, S.,Inoue, T.,Goto, N.,Okamoto, K.,Shirouzu, M.,Sawa, M.,Yamada, T. TNIK inhibition abrogates colorectal cancer stemness Nat Commun 2016 7 12586 12586 5AUM Crystal structure of a Fab fragment with the ligand peptide 2015-04-30 2016-08-10 Kitago, Y.,Takagi, J. Crystal structure of a Fab fragment with the ligand peptide To Be Published 0 0 0 0 5GGI 27493216 Crystal structure of human protein O-mannose beta-1,2-N-acetylglucosaminyltransferase in complex with Mn, UDP and Mannosyl-peptide 2016-06-16 2016-08-10 Kuwabara, N.,Manya, H.,Yamada, T.,Tateno, H.,Kanagawa, M.,Kobayashi, K.,Akasaka-Manya, K.,Hirose, Y.,Mizuno, M.,Ikeguchi, M.,Toda, T.,Hirabayashi, J.,Senda, T.,Endo, T.,Kato, R. Carbohydrate-binding domain of the POMGnT1 stem region modulates O-mannosylation sites of alpha-dystroglycan Proc.Natl.Acad.Sci.USA 2016 113 9280 9285 5GLH 27595334 Human endothelin receptor type-B in complex with ET-1 2016-07-11 2016-09-07 Shihoya, W.,Nishizawa, T.,Okuta, A.,Tani, K.,Dohmae, N.,Fujiyoshi, Y.,Nureki, O.,Doi, T. Activation mechanism of endothelin ETB receptor by endothelin-1. Nature 2016 537 363 368 5GLI 27595334 Human endothelin receptor type-B in the ligand-free form 2016-07-11 2016-09-07 Shihoya, W.,Nishizawa, T.,Okuta, A.,Tani, K.,Dohmae, N.,Fujiyoshi, Y.,Nureki, O.,Doi, T. Activation mechanism of endothelin ETB receptor by endothelin-1. Nature 2016 537 363 368 5AZY 27569046 Crystal structure of p24delta1 GOLD domain (Native 2) 2015-10-23 2016-09-14 Nagae, M.,Hirata, T.,Morita-Matsumoto, K.,Theiler, R.,Fujita, M.,Kinoshita, T.,Yamaguchi, Y. 3D Structure and Interaction of p24 beta and p24 delta Golgi Dynamics Domains: Implication for p24 Complex Formation and Cargo Transport J.Mol.Biol. 2016 428 4087 4099 5B4C 27609419 Crystal structure of H10N mutant of LpxH with manganese 2016-04-03 2016-09-28 Okada, C.,Wakabayashi, H.,Kobayashi, M.,Shinoda, A.,Tanaka, I.,Yao, M. Crystal structures of the UDP-diacylglucosamine pyrophosphohydrase LpxH from Pseudomonas aeruginosa Sci Rep 2016 6 32822 32822 5GVS 27721487 Crystal structure of the DDX41 DEAD domain in an apo open form 2016-09-06 2016-10-19 Omura, H.,Oikawa, D.,Nakane, T.,Kato, M.,Ishii, R.,Ishitani, R.,Tokunaga, F.,Nureki, O. Structural and Functional Analysis of DDX41: a bispecific immune receptor for DNA and cyclic dinucleotide Sci Rep 2016 6 34756 34756 5GXB 27791182 crystal structure of a LacY/Nanobody complex 2016-09-16 2016-10-26 Jiang, X.,Smirnova, I.,Kasho, V.,Wu, J.,Hirata, K.,Ke, M.,Pardon, E.,Steyaert, J.,Yan, N.,Kaback, H.R. Crystal structure of a LacY-nanobody complex in a periplasmic-open conformation. Proc.Natl.Acad.Sci.USA 2016 113 12420 12425 5B4W 27984026 Crystal structure of Plexin inhibitor complex 2016-04-19 2016-12-28 Matsunaga, Y.,Bashiruddin, N.K.,Kitago, Y.,Takagi, J.,Suga, H. Allosteric Inhibition of a Semaphorin 4D Receptor Plexin B1 by a High-Affinity Macrocyclic Peptide Cell Chem Biol 2016 23 1341 1350 5B3T 28169272 Crystal structure of apo-form biliverdin reductase from Synechocystis sp. PCC 6803 2016-03-12 2017-02-15 Takao, H.,Hirabayashi, K.,Nishigaya, Y.,Kouriki, H.,Nakaniwa, T.,Hagiwara, Y.,Harada, J.,Sato, H.,Yamazaki, T.,Sakakibara, Y.,Suiko, M.,Asada, Y.,Takahashi, Y.,Yamamoto, K.,Fukuyama, K.,Sugishima, M.,Wada, K. A substrate-bound structure of cyanobacterial biliverdin reductase identifies stacked substrates as critical for activity Nat Commun 2017 8 14397 14397 5B3U 28169272 Crystal structure of biliverdin reductase in complex with NADP+ from Synechocystis sp. PCC 6803 2016-03-13 2017-02-15 Takao, H.,Hirabayashi, K.,Nishigaya, Y.,Kouriki, H.,Nakaniwa, T.,Hagiwara, Y.,Harada, J.,Sato, H.,Yamazaki, T.,Sakakibara, Y.,Suiko, M.,Asada, Y.,Takahashi, Y.,Yamamoto, K.,Fukuyama, K.,Sugishima, M.,Wada, K. A substrate-bound structure of cyanobacterial biliverdin reductase identifies stacked substrates as critical for activity Nat Commun 2017 8 14397 14397 5GQL 28094987 Crystal structure of Wild Type Cypovirus Polyhedra 2016-08-07 2017-02-15 Abe, S.,Tabe, H.,Ijiri, H.,Yamashita, K.,Hirata, K.,Atsumi, K.,Shimoi, T.,Akai, M.,Mori, H.,Kitagawa, S.,Ueno, T. Crystal Engineering of Self-Assembled Porous Protein Materials in Living Cells ACS Nano 2017 11 2410 2419 5GQM 28094987 Crystal structure of in cellulo Wild Type Cypovirus Polyhedra 2016-08-07 2017-02-15 Abe, S.,Tabe, H.,Ijiri, H.,Yamashita, K.,Hirata, K.,Atsumi, K.,Shimoi, T.,Akai, M.,Mori, H.,Kitagawa, S.,Ueno, T. Crystal Engineering of Self-Assembled Porous Protein Materials in Living Cells ACS Nano 2017 11 2410 2419 5GQN 28094987 Crystal structure of in cellulo Cypovirus Polyhedra mutant with deletion of Gly192-Ala194 2016-08-07 2017-02-15 Abe, S.,Tabe, H.,Ijiri, H.,Yamashita, K.,Hirata, K.,Atsumi, K.,Shimoi, T.,Akai, M.,Mori, H.,Kitagawa, S.,Ueno, T. Crystal Engineering of Self-Assembled Porous Protein Materials in Living Cells ACS Nano 2017 11 2410 2419 5LWY 28329765 Revised crystal structure of the human adiponectin receptor 2 in complex with a C18 free fatty acid 2016-09-19 2017-03-22 Vasiliauskaite-Brooks, I.,Sounier, R.,Rochaix, P.,Bellot, G.,Fortier, M.,Hoh, F.,De Colibus, L.,Bechara, C.,Saied, E.M.,Arenz, C.,Leyrat, C.,Granier, S. Structural insights into adiponectin receptors suggest ceramidase activity. Nature 2017 6 120 123 5LXG 28329765 Revised crystal structure of the human adiponectin receptor 1 in an open conformation 2016-09-21 2017-03-22 Vasiliauskaite-Brooks, I.,Sounier, R.,Rochaix, P.,Bellot, G.,Fortier, M.,Hoh, F.,De Colibus, L.,Bechara, C.,Saied, E.M.,Arenz, C.,Leyrat, C.,Granier, S. Structural insights into adiponectin receptors suggest ceramidase activity. Nature 2017 6 120 123 5B71 28439081 Crystal structure of complement C5 in complex with SKY59 2016-06-03 2017-05-03 Fukuzawa, T.,Sampei, Z.,Haraya, K.,Ruike, Y.,Shida-Kawazoe, M.,Shimizu, Y.,Gan, S.W.,Irie, M.,Tsuboi, Y.,Tai, H.,Sakiyama, T.,Sakamoto, A.,Ishii, S.,Maeda, A.,Iwayanagi, Y.,Shibahara, N.,Shibuya, M.,Nakamura, G.,Nambu, T.,Hayasaka, A.,Mimoto, F.,Okura, Y.,Hori, Y.,Habu, K.,Wada, M.,Miura, T.,Tachibana, T.,Honda, K.,Tsunoda, H.,Kitazawa, T.,Kawabe, Y.,Igawa, T.,Hattori, K.,Nezu, J. Long lasting neutralization of C5 by SKY59, a novel recycling antibody, is a potential therapy for complement-mediated diseases. Sci Rep 2017 7 1080 1080 5B4F 28439027 Sulfur Transferase TtuA in complex with iron sulfur cluster 2016-04-03 2017-05-10 Chen, M.,Asai, S.I.,Narai, S.,Nambu, S.,Omura, N.,Sakaguchi, Y.,Suzuki, T.,Ikeda-Saito, M.,Watanabe, K.,Yao, M.,Shigi, N.,Tanaka, Y. Biochemical and structural characterization of oxygen-sensitive 2-thiouridine synthesis catalyzed by an iron-sulfur protein TtuA Proc. Natl. Acad. Sci. U.S.A. 2017 114 4954 4959 5X4Z 28412353 RNA Polymerase II from Komagataella Pastoris (Type-1 crystal) 2017-02-14 2017-05-17 Ehara, H.,Umehara, T.,Sekine, S.I.,Yokoyama, S. Crystal structure of RNA polymerase II from Komagataella pastoris Biochem. Biophys. Res. Commun. 2017 487 230 235 5XAM 28467902 Crystal structure of SecDF in I form at 4 A resolution 2017-03-14 2017-05-17 Furukawa, A.,Yoshikaie, K.,Mori, T.,Mori, H.,Morimoto, Y.V.,Sugano, Y.,Iwaki, S.,Minamino, T.,Sugita, Y.,Tanaka, Y.,Tsukazaki, T. Tunnel Formation Inferred from the I-Form Structures of the Proton-Driven Protein Secretion Motor SecDF Cell Rep 2017 19 895 901 5XAN 28467902 Crystal structure of SecDF in I form (P212121 space group) 2017-03-14 2017-05-17 Furukawa, A.,Yoshikaie, K.,Mori, T.,Mori, H.,Morimoto, Y.V.,Sugano, Y.,Iwaki, S.,Minamino, T.,Sugita, Y.,Tanaka, Y.,Tsukazaki, T. Tunnel Formation Inferred from the I-Form Structures of the Proton-Driven Protein Secretion Motor SecDF Cell Rep 2017 19 895 901 5XAP 28467902 Crystal structure of SecDF in I form (C2 space group) 2017-03-14 2017-05-17 Furukawa, A.,Yoshikaie, K.,Mori, T.,Mori, H.,Morimoto, Y.V.,Sugano, Y.,Iwaki, S.,Minamino, T.,Sugita, Y.,Tanaka, Y.,Tsukazaki, T. Tunnel Formation Inferred from the I-Form Structures of the Proton-Driven Protein Secretion Motor SecDF Cell Rep 2017 19 895 901 5JYJ Crystal structure of mouse JUNO 2016-05-14 2017-05-24 Kato, K.,Satouh, Y.,Nishimasu, H.,Kurabayashi, A.,Morita, J.,Fujihara, Y.,Oji, A.,Ishitani, R.,Ikawa, M.,Nureki, O. Crystal structure of the egg IZUMO1 receptor JUNO To Be Published 0 0 0 0 5GJ3 28913898 Periplasmic heme-binding protein RhuT from Roseiflexus sp. RS-1 in two-heme bound form (holo-2) 2016-06-26 2017-06-28 Naoe, Y.,Nakamura, N.,Rahman, M.M.,Tosha, T.,Nagatoishi, S.,Tsumoto, K.,Shiro, Y.,Sugimoto, H. Structural basis for binding and transfer of heme in bacterial heme-acquisition systems. Proteins 2017 85 2217 2230 5XDN 28608415 Crystal structure of human voltage-dependent anion channel 1 (hVDAC1) in P22121 space group 2017-03-28 2017-06-28 Hosaka, T.,Okazaki, M.,Kimura-Someya, T.,Ishizuka-Katsura, Y.,Ito, K.,Yokoyama, S.,Dodo, K.,Sodeoka, M.,Shirouzu, M. Crystal structural characterization reveals novel oligomeric interactions of human voltage-dependent anion channel 1 Protein Sci. 2017 26 1749 1758 5XDO 28608415 Crystal structure of human voltage-dependent anion channel 1 (hVDAC1) in C222 space group 2017-03-28 2017-06-28 Hosaka, T.,Okazaki, M.,Kimura-Someya, T.,Ishizuka-Katsura, Y.,Ito, K.,Yokoyama, S.,Dodo, K.,Sodeoka, M.,Shirouzu, M. Crystal structural characterization reveals novel oligomeric interactions of human voltage-dependent anion channel 1 Protein Sci. 2017 26 1749 1758 5XDU 28621933 Staphylococcus aureus FtsZ 12-316 complexed with TXA6101 2017-03-30 2017-08-02 Fujita, J.,Maeda, Y.,Mizohata, E.,Inoue, T.,Kaul, M.,Parhi, A.K.,LaVoie, E.J.,Pilch, D.S.,Matsumura, H. Structural Flexibility of an Inhibitor Overcomes Drug Resistance Mutations in Staphylococcus aureus FtsZ ACS Chem. Biol. 2017 12 1947 1955 5X7D 28813418 Structure of beta2 adrenoceptor bound to carazolol and an intracellular allosteric antagonist 2017-02-25 2017-08-16 Liu, X.,Ahn, S.,Kahsai, A.W.,Meng, K.C.,Latorraca, N.R.,Pani, B.,Venkatakrishnan, A.J.,Masoudi, A.,Weis, W.I.,Dror, R.O.,Chen, X.,Lefkowitz, R.J.,Kobilka, B.K. Mechanism of intracellular allosteric beta 2AR antagonist revealed by X-ray crystal structure. Nature 2017 548 480 484 5X93 28805809 Human endothelin receptor type-B in complex with antagonist K-8794 2017-03-05 2017-08-16 Shihoya, W.,Nishizawa, T.,Yamashita, K.,Inoue, A.,Hirata, K.,Kadji, F.M.N.,Okuta, A.,Tani, K.,Aoki, J.,Fujiyoshi, Y.,Doi, T.,Nureki, O. X-ray structures of endothelin ETB receptor bound to clinical antagonist bosentan and its analog Nat. Struct. Mol. Biol. 2017 24 758 764 5XPR 28805809 Human endothelin receptor type-B in complex with antagonist bosentan 2017-06-04 2017-08-16 Shihoya, W.,Nishizawa, T.,Yamashita, K.,Inoue, A.,Hirata, K.,Kadji, F.M.N.,Okuta, A.,Tani, K.,Aoki, J.,Fujiyoshi, Y.,Doi, T.,Nureki, O. X-ray structures of endothelin ETB receptor bound to clinical antagonist bosentan and its analog Nat. Struct. Mol. Biol. 2017 24 758 764 5XSZ 28792932 Crystal structure of zebrafish lysophosphatidic acid receptor LPA6 2017-06-16 2017-08-16 Taniguchi, R.,Inoue, A.,Sayama, M.,Uwamizu, A.,Yamashita, K.,Hirata, K.,Yoshida, M.,Tanaka, Y.,Kato, H.E.,Nakada-Nakura, Y.,Otani, Y.,Nishizawa, T.,Doi, T.,Ohwada, T.,Ishitani, R.,Aoki, J.,Nureki, O. Structural insights into ligand recognition by the lysophosphatidic acid receptor LPA6 Nature 2017 548 356 360 5X1C 28878401 Crystal Structure of Human CRMP-2 without C-terminal Tail 2017-01-25 2017-09-20 Niwa, S.,Nakamura, F.,Tomabechi, Y.,Aoki, M.,Shigematsu, H.,Matsumoto, T.,Yamagata, A.,Fukai, S.,Hirokawa, N.,Goshima, Y.,Shirouzu, M.,Nitta, R. Structural basis for CRMP2-induced axonal microtubule formation Sci Rep 2017 7 10681 10681 5XJJ 28877507 Crystal structure of a MATE family protein 2017-05-02 2017-09-20 Tanaka, Y.,Iwaki, S.,Tsukazaki, T. Crystal Structure of a Plant Multidrug and Toxic Compound Extrusion Family Protein Structure 2017 25 1455 0 5YCK 28877507 Crystal structure of a MATE family protein derived from Camelina sativa at 2.3 angstrom 2017-09-07 2017-09-27 Tanaka, Y.,Iwaki, S.,Tsukazaki, T. Crystal Structure of a Plant Multidrug and Toxic Compound Extrusion Family Protein Structure 2017 25 1455 0 5Y78 28970497 Crystal structure of the triose-phosphate/phosphate translocator in complex with inorganic phosphate 2017-08-16 2017-10-04 Lee, Y.,Nishizawa, T.,Takemoto, M.,Kumazaki, K.,Yamashita, K.,Hirata, K.,Minoda, A.,Nagatoishi, S.,Tsumoto, K.,Ishitani, R.,Nureki, O. Structure of the triose-phosphate/phosphate translocator reveals the basis of substrate specificity Nat Plants 2017 3 825 832 5Y78 28970497 Crystal structure of the triose-phosphate/phosphate translocator in complex with inorganic phosphate 2017-08-16 2017-10-04 Lee, Y.,Nishizawa, T.,Takemoto, M.,Kumazaki, K.,Yamashita, K.,Hirata, K.,Minoda, A.,Nagatoishi, S.,Tsumoto, K.,Ishitani, R.,Nureki, O. Structure of the triose-phosphate/phosphate translocator reveals the basis of substrate specificity Nat Plants 2017 3 825 832 5Y79 28970497 Crystal structure of the triose-phosphate/phosphate translocator in complex with 3-phosphoglycerate 2017-08-16 2017-10-04 Lee, Y.,Nishizawa, T.,Takemoto, M.,Kumazaki, K.,Yamashita, K.,Hirata, K.,Minoda, A.,Nagatoishi, S.,Tsumoto, K.,Ishitani, R.,Nureki, O. Structure of the triose-phosphate/phosphate translocator reveals the basis of substrate specificity Nat Plants 2017 3 825 832 5H0B 28662963 Crystal structure of HCK complexed with a pyrrolo-pyrimidine inhibitor (S)-2-(((1r,4S)-4-(4-amino-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d]pyrimidin-7-yl)cyclohexyl)amino)-4-methylpentanoic acid 2016-10-04 2017-10-11 Yuki, H.,Kikuzato, K.,Koda, Y.,Mikuni, J.,Tomabechi, Y.,Kukimoto-Niino, M.,Tanaka, A.,Shirai, F.,Shirouzu, M.,Koyama, H.,Honma, T. Activity cliff for 7-substituted pyrrolo-pyrimidine inhibitors of HCK explained in terms of predicted basicity of the amine nitrogen. Bioorg. Med. Chem. 2017 25 4259 4264 5Y8B 28913898 Periplasmic heme-binding protein RhuT from Roseiflexus sp. RS-1 in apo form 2017-08-20 2017-10-11 Naoe, Y.,Nakamura, N.,Rahman, M.M.,Tosha, T.,Nagatoishi, S.,Tsumoto, K.,Shiro, Y.,Sugimoto, H. Structural basis for binding and transfer of heme in bacterial heme-acquisition systems Proteins 2017 85 2217 2230 5XO2 29046357 Crystal structure of human paired immunoglobulin-like type 2 receptor alpha with synthesized glycopeptide II 2017-05-25 2017-10-25 Furukawa, A.,Kakita, K.,Yamada, T.,Ishizuka, M.,Sakamoto, J.,Hatori, N.,Maeda, N.,Ohsaka, F.,Saitoh, T.,Nomura, T.,Kuroki, K.,Nambu, H.,Arase, H.,Matsunaga, S.,Anada, M.,Ose, T.,Hashimoto, S.,Maenaka, K. Structural and thermodynamic analyses reveal critical features of glycopeptide recognition by the human PILR alpha immune cell receptor. J. Biol. Chem. 2017 292 21128 21136 5WQC 29225076 Crystal structure of human orexin 2 receptor bound to the selective antagonist EMPA determined by the synchrotron light source at SPring-8. 2016-11-25 2017-11-29 Suno, R.,Kimura, K.T.,Nakane, T.,Yamashita, K.,Wang, J.,Fujiwara, T.,Yamanaka, Y.,Im, D.,Horita, S.,Tsujimoto, H.,Tawaramoto, M.S.,Hirokawa, T.,Nango, E.,Tono, K.,Kameshima, T.,Hatsui, T.,Joti, Y.,Yabashi, M.,Shimamoto, K.,Yamamoto, M.,Rosenbaum, D.M.,Iwata, S.,Shimamura, T.,Kobayashi, T. Crystal Structures of Human Orexin 2 Receptor Bound to the Subtype-Selective Antagonist EMPA Structure 2018 26 7 0 5YHA 29138769 Crystal structure of Pd(allyl)/Wild Type Polyhedra 2017-09-27 2017-11-29 Abe, S.,Atsumi, K.,Yamashita, K.,Hirata, K.,Mori, H.,Ueno, T. Structure of in cell protein crystals containing organometallic complexes. Phys Chem Chem Phys 2018 20 2986 2989 5YHB 29138769 Crystal structure of Pd(allyl)/polyhedra mutant with deletion of Gly192-Ala194 2017-09-27 2017-11-29 Abe, S.,Atsumi, K.,Yamashita, K.,Hirata, K.,Mori, H.,Ueno, T. Structure of in cell protein crystals containing organometallic complexes. Phys Chem Chem Phys 2018 20 2986 2989 5Y50 29158478 Crystal structure of eukaryotic MATE transporter AtDTX14 2017-08-06 2017-12-06 Miyauchi, H.,Moriyama, S.,Kusakizako, T.,Kumazaki, K.,Nakane, T.,Yamashita, K.,Hirata, K.,Dohmae, N.,Nishizawa, T.,Ito, K.,Miyaji, T.,Moriyama, Y.,Ishitani, R.,Nureki, O. Structural basis for xenobiotic extrusion by eukaryotic MATE transporter Nat Commun 2017 8 1633 1633 5YUB 29274127 Crystal structure of voltage-gated sodium channel NavAb E32Q mutant 2017-11-21 2017-12-27 Irie, K.,Haga, Y.,Shimomura, T.,Fujiyoshi, Y. Structural insight on the voltage dependence of prokaryotic voltage gated sodium channel NavAb. FEBS Lett. 2017 0 0 0 5YUC 29274127 Crystal structure of voltage-gated sodium channel NavAb N49K mutant 2017-11-21 2017-12-27 Irie, K.,Haga, Y.,Shimomura, T.,Fujiyoshi, Y. Structural insight on the voltage dependence of prokaryotic voltage gated sodium channel NavAb. FEBS Lett. 2017 0 0 0 5X33 29309055 Leukotriene B4 receptor BLT1 in complex with BIIL260 2017-02-03 2018-01-03 Hori, T.,Okuno, T.,Hirata, K.,Yamashita, K.,Kawano, Y.,Yamamoto, M.,Hato, M.,Nakamura, M.,Shimizu, T.,Yokomizo, T.,Miyano, M.,Yokoyama, S. Na+-mimicking ligands stabilize the inactive state of leukotriene B4receptor BLT1. Nat. Chem. Biol. 2018 14 262 269 5YHF 29398525 Crystal structure of SecDF in Super-membrane-facing form 2017-09-28 2018-02-14 Furukawa, A.,Nakayama, S.,Yoshikaie, K.,Tanaka, Y.,Tsukazaki, T. Remote Coupled Drastic beta-Barrel to beta-Sheet Transition of the Protein Translocation Motor. Structure 2018 26 485 0 5YR1 29405208 Crystal Structure of Cypovirus Polyhedra R13A/E73C/Y83C/S193C/A194C Mutant 2017-11-08 2018-02-21 Negishi, H.,Abe, S.,Yamashita, K.,Hirata, K.,Niwase, K.,Boudes, M.,Coulibaly, F.,Mori, H.,Ueno, T. Supramolecular protein cages constructed from a crystalline protein matrix Chem. Commun. (Camb.) 2018 54 1988 1991 5YR9 29405208 Crystal Structure of Cypovirus Polyhedra R13A/E73C/Y83C Mutant 2017-11-08 2018-02-21 Negishi, H.,Abe, S.,Yamashita, K.,Hirata, K.,Niwase, K.,Boudes, M.,Coulibaly, F.,Mori, H.,Ueno, T. Supramolecular protein cages constructed from a crystalline protein matrix Chem. Commun. (Camb.) 2018 54 1988 1991 5YRB 29405208 Crystal Structure of Oxidized Cypovirus Polyhedra R13A/E73C/Y83C/S193C/A194C Mutant 2017-11-09 2018-02-21 Negishi, H.,Abe, S.,Yamashita, K.,Hirata, K.,Niwase, K.,Boudes, M.,Coulibaly, F.,Mori, H.,Ueno, T. Supramolecular protein cages constructed from a crystalline protein matrix Chem. Commun. (Camb.) 2018 54 1988 1991 5YRC 29405208 Crystal Structure of Oxidized Cypovirus Polyhedra R13A/E73C/Y83C Mutant 2017-11-09 2018-02-21 Negishi, H.,Abe, S.,Yamashita, K.,Hirata, K.,Niwase, K.,Boudes, M.,Coulibaly, F.,Mori, H.,Ueno, T. Supramolecular protein cages constructed from a crystalline protein matrix Chem. Commun. (Camb.) 2018 54 1988 1991 5WXJ 29440735 Apo EarP 2017-01-07 2018-02-28 Sengoku, T.,Suzuki, T.,Dohmae, N.,Watanabe, C.,Honma, T.,Hikida, Y.,Yamaguchi, Y.,Takahashi, H.,Yokoyama, S.,Yanagisawa, T. Structural basis of protein arginine rhamnosylation by glycosyltransferase EarP Nat. Chem. Biol. 2018 14 368 374 5YLV 29618813 Crystal structure of the gastric proton pump complexed with SCH28080 2017-10-19 2018-04-11 Abe, K.,Irie, K.,Nakanishi, H.,Suzuki, H.,Fujiyoshi, Y. Crystal structures of the gastric proton pump Nature 2018 556 214 218 5Y9M 29717996 Crystal structure of CK2a2 form 3 2017-08-25 2018-05-16 Tsuyuguchi, M.,Nakaniwa, T.,Kinoshita, T. Crystal structures of human CK2 alpha 2 in new crystal forms arising from a subtle difference in salt concentration Acta Crystallogr F Struct Biol 2018 74 288 293 5XJM 29967536 Complex structure of angiotensin II type 2 receptor with Fab 2017-05-02 2018-07-11 Asada, H.,Horita, S.,Hirata, K.,Shiroishi, M.,Shiimura, Y.,Iwanari, H.,Hamakubo, T.,Shimamura, T.,Nomura, N.,Kusano-Arai, O.,Uemura, T.,Suno, C.,Kobayashi, T.,Iwata, S. Crystal structure of the human angiotensin II type 2 receptor bound to an angiotensin II analog Nat. Struct. Mol. Biol. 2018 25 570 576 5YTL 30082512 Crystal structure of Geobacillus thermodenitrificans copper-containing nitrite reductase determined with an anaerobically manipulated crystal 2017-11-19 2018-08-22 Fukuda, Y.,Matsusaki, T.,Tse, K.M.,Mizohata, E.,Murphy, M.E.P.,Inoue, T. Crystallographic study of dioxygen chemistry in a copper-containing nitrite reductase from Geobacillus thermodenitrificans. Acta Crystallogr D Struct Biol 2018 74 769 777 5ZCW 30224964 Structure of the Methanosarcina mazei class II CPD-photolyase in complex with intact, phosphodiester linked, CPD-lesion 2018-02-21 2018-08-22 Maestre-Reyna, M.,Yamamoto, J.,Huang, W.C.,Tsai, M.D.,Essen, L.O.,Bessho, Y. Twist and turn: a revised structural view on the unpaired bubble of class II CPD photolyase in complex with damaged DNA. IUCrJ 2018 5 608 618 5Y7Z 30214852 Complex structure of cyclin G-associated kinase with gefitinib 2017-08-18 2018-08-29 Ohbayashi, N.,Murayama, K.,Kato-Murayama, M.,Kukimoto-Niino, M.,Uejima, T.,Matsuda, T.,Ohsawa, N.,Yokoyoma, S.,Nojima, H.,Shirouzu, M. Structural Basis for the Inhibition of Cyclin G-Associated Kinase by Gefitinib. ChemistryOpen 2018 7 721 727 5Y80 30214852 Complex structure of cyclin G-associated kinase with gefitinib 2017-08-18 2018-08-29 Ohbayashi, N.,Murayama, K.,Kato-Murayama, M.,Kukimoto-Niino, M.,Uejima, T.,Matsuda, T.,Ohsawa, N.,Yokoyoma, S.,Nojima, H.,Shirouzu, M. Structural Basis for the Inhibition of Cyclin G-Associated Kinase by Gefitinib. ChemistryOpen 2018 7 721 727 6CSO 30158697 Crystal structure of the designed light-gated anion channel iC++ at pH6.5 2018-03-21 2018-09-05 Kato, H.E.,Kim, Y.S.,Paggi, J.M.,Evans, K.E.,Allen, W.E.,Richardson, C.,Inoue, K.,Ito, S.,Ramakrishnan, C.,Fenno, L.E.,Yamashita, K.,Hilger, D.,Lee, S.Y.,Berndt, A.,Shen, K.,Kandori, H.,Dror, R.O.,Kobilka, B.K.,Deisseroth, K. Structural mechanisms of selectivity and gating in anion channelrhodopsins. Nature 2018 561 349 354 6BTX 30082682 Structure of a bacterial metal transporter 2017-12-08 2018-09-19 Deshpande, C.N.,Ruwe, T.A.,Shawki, A.,Xin, V.,Vieth, K.R.,Valore, E.V.,Qiao, B.,Ganz, T.,Nemeth, E.,Mackenzie, B.,Jormakka, M. Calcium is an essential cofactor for metal efflux by the ferroportin transporter family. Nat Commun 2018 9 3075 3075 5ZLE 30272000 Human duodenal cytochrome b (Dcytb) in substrate free form 2018-03-27 2018-10-31 Ganasen, M.,Togashi, H.,Takeda, H.,Asakura, H.,Tosha, T.,Yamashita, K.,Hirata, K.,Nariai, Y.,Urano, T.,Yuan, X.,Hamza, I.,Mauk, A.G.,Shiro, Y.,Sugimoto, H.,Sawai, H. Structural basis for promotion of duodenal iron absorption by enteric ferric reductase with ascorbate. Commun Biol 2018 1 120 120 5ZLG 30272000 Human duodenal cytochrome b (Dcytb) in zinc ion and ascorbate bound form 2018-03-27 2018-10-31 Ganasen, M.,Togashi, H.,Takeda, H.,Asakura, H.,Tosha, T.,Yamashita, K.,Hirata, K.,Nariai, Y.,Urano, T.,Yuan, X.,Hamza, I.,Mauk, A.G.,Shiro, Y.,Sugimoto, H.,Sawai, H. Structural basis for promotion of duodenal iron absorption by enteric ferric reductase with ascorbate. Commun Biol 2018 1 120 120 6AL2 30241934 Crystal structure of E. coli YidC at 2.8 A resolution 2018-09-05 2018-11-07 Tanaka, Y.,Izumioka, A.,Abdul Hamid, A.,Fujii, A.,Haruyama, T.,Furukawa, A.,Tsukazaki, T. 2.8-angstrom crystal structure of Escherichia coli YidC revealing all core regions, including flexible C2 loop. Biochem. Biophys. Res. Commun. 2018 505 141 145 5YC8 30420692 Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor bound with NMS (Hg-derivative) 2017-09-06 2018-11-21 Suno, R.,Lee, S.,Maeda, S.,Yasuda, S.,Yamashita, K.,Hirata, K.,Horita, S.,Tawaramoto, M.S.,Tsujimoto, H.,Murata, T.,Kinoshita, M.,Yamamoto, M.,Kobilka, B.K.,Vaidehi, N.,Iwata, S.,Kobayashi, T. Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor Nat. Chem. Biol. 2018 14 1150 1158 5ZIH 30258177 Crystal structure of the red light-activated channelrhodopsin Chrimson. 2018-03-15 2018-11-21 Oda, K.,Vierock, J.,Oishi, S.,Rodriguez-Rozada, S.,Taniguchi, R.,Yamashita, K.,Wiegert, J.S.,Nishizawa, T.,Hegemann, P.,Nureki, O. Crystal structure of the red light-activated channelrhodopsin Chrimson. Nat Commun 2018 9 3949 3949 5ZK3 30420692 Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor bound with QNB 2018-03-23 2018-11-21 Suno, R.,Lee, S.,Maeda, S.,Yasuda, S.,Yamashita, K.,Hirata, K.,Horita, S.,Tawaramoto, M.S.,Tsujimoto, H.,Murata, T.,Kinoshita, M.,Yamamoto, M.,Kobilka, B.K.,Vaidehi, N.,Iwata, S.,Kobayashi, T. Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor Nat. Chem. Biol. 2018 14 1150 1158 5ZK8 30420692 Crystal structure of M2 muscarinic acetylcholine receptor bound with NMS 2018-03-23 2018-11-21 Suno, R.,Lee, S.,Maeda, S.,Yasuda, S.,Yamashita, K.,Hirata, K.,Horita, S.,Tawaramoto, M.S.,Tsujimoto, H.,Murata, T.,Kinoshita, M.,Yamamoto, M.,Kobilka, B.K.,Vaidehi, N.,Iwata, S.,Kobayashi, T. Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor Nat. Chem. Biol. 2018 14 1150 1158 5ZKB 30420692 Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor bound with AF-DX 384 2018-03-23 2018-11-21 Suno, R.,Lee, S.,Maeda, S.,Yasuda, S.,Yamashita, K.,Hirata, K.,Horita, S.,Tawaramoto, M.S.,Tsujimoto, H.,Murata, T.,Kinoshita, M.,Yamamoto, M.,Kobilka, B.K.,Vaidehi, N.,Iwata, S.,Kobayashi, T. Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor Nat. Chem. Biol. 2018 14 1150 1158 5ZKC 30420692 Crystal structure of rationally thermostabilized M2 muscarinic acetylcholine receptor bound with NMS 2018-03-23 2018-11-21 Suno, R.,Lee, S.,Maeda, S.,Yasuda, S.,Yamashita, K.,Hirata, K.,Horita, S.,Tawaramoto, M.S.,Tsujimoto, H.,Murata, T.,Kinoshita, M.,Yamamoto, M.,Kobilka, B.K.,Vaidehi, N.,Iwata, S.,Kobayashi, T. Structural insights into the subtype-selective antagonist binding to the M2muscarinic receptor Nat. Chem. Biol. 2018 14 1150 1158 6IGK 30413709 Crystal Structure of human ETB receptor in complex with Endothelin-3 2018-09-25 2018-11-21 Shihoya, W.,Izume, T.,Inoue, A.,Yamashita, K.,Kadji, F.M.N.,Hirata, K.,Aoki, J.,Nishizawa, T.,Nureki, O. Crystal structures of human ETBreceptor provide mechanistic insight into receptor activation and partial activation. Nat Commun 2018 9 4711 4711 6IGL 30413709 Crystal Structure of human ETB receptor in complex with IRL1620 2018-09-25 2018-11-21 Shihoya, W.,Izume, T.,Inoue, A.,Yamashita, K.,Kadji, F.M.N.,Hirata, K.,Aoki, J.,Nishizawa, T.,Nureki, O. Crystal structures of human ETBreceptor provide mechanistic insight into receptor activation and partial activation. Nat Commun 2018 9 4711 4711 6IQZ 30156345 High resolution structure of bilirubin oxidase from Myrothecium verrucaria - wild type 2018-11-09 2018-11-21 Akter, M.,Tokiwa, T.,Shoji, M.,Nishikawa, K.,Shigeta, Y.,Sakurai, T.,Higuchi, Y.,Kataoka, K.,Shibata, N. Redox Potential-Dependent Formation of an Unusual His-Trp Bond in Bilirubin Oxidase. Chemistry 2018 24 18052 18058 5ZHP 30404914 M3 muscarinic acetylcholine receptor in complex with a selective antagonist 2018-03-13 2018-11-28 Liu, H.,Hofmann, J.,Fish, I.,Schaake, B.,Eitel, K.,Bartuschat, A.,Kaindl, J.,Rampp, H.,Banerjee, A.,Hubner, H.,Clark, M.J.,Vincent, S.G.,Fisher, J.T.,Heinrich, M.R.,Hirata, K.,Liu, X.,Sunahara, R.K.,Shoichet, B.K.,Kobilka, B.K.,Gmeiner, P. Structure-guided development of selective M3 muscarinic acetylcholine receptor antagonists Proc. Natl. Acad. Sci. U.S.A. 2018 115 12046 12050 5YHL 30510193 Crystal structure of the human prostaglandin E receptor EP4 in complex with Fab and an antagonist Br-derivative 2017-09-28 2018-12-05 Toyoda, Y.,Morimoto, K.,Suno, R.,Horita, S.,Yamashita, K.,Hirata, K.,Sekiguchi, Y.,Yasuda, S.,Shiroishi, M.,Shimizu, T.,Urushibata, Y.,Kajiwara, Y.,Inazumi, T.,Hotta, Y.,Asada, H.,Nakane, T.,Shiimura, Y.,Nakagita, T.,Tsuge, K.,Yoshida, S.,Kuribara, T.,Hosoya, T.,Sugimoto, Y.,Nomura, N.,Sato, M.,Hirokawa, T.,Kinoshita, M.,Murata, T.,Takayama, K.,Yamamoto, M.,Narumiya, S.,Iwata, S.,Kobayashi, T. Ligand binding to human prostaglandin E receptor EP4at the lipid-bilayer interface. Nat. Chem. Biol. 2019 15 18 26 5YWY 30510193 Crystal structure of the human prostaglandin E receptor EP4 in complex with Fab and ONO-AE3-208 2017-11-30 2018-12-05 Toyoda, Y.,Morimoto, K.,Suno, R.,Horita, S.,Yamashita, K.,Hirata, K.,Sekiguchi, Y.,Yasuda, S.,Shiroishi, M.,Shimizu, T.,Urushibata, Y.,Kajiwara, Y.,Inazumi, T.,Hotta, Y.,Asada, H.,Nakane, T.,Shiimura, Y.,Nakagita, T.,Tsuge, K.,Yoshida, S.,Kuribara, T.,Hosoya, T.,Sugimoto, Y.,Nomura, N.,Sato, M.,Hirokawa, T.,Kinoshita, M.,Murata, T.,Takayama, K.,Yamamoto, M.,Narumiya, S.,Iwata, S.,Kobayashi, T. Ligand binding to human prostaglandin E receptor EP4at the lipid-bilayer interface. Nat. Chem. Biol. 2019 15 18 26 6A33 30378729 Binding and Enhanced Binding between Key Immunity Proteins TRAF6 and TIFA 2018-06-14 2018-12-05 Huang, W.C.,Liao, J.H.,Hsiao, T.C.,Wei, T.W.,Maestre-Reyna, M.,Bessho, Y.,Tsai, M.D. Binding and Enhanced Binding between Key Immunity Proteins TRAF6 and TIFA. Chembiochem 2019 20 140 146 6AK3 30510192 Crystal structure of the human prostaglandin E receptor EP3 bound to prostaglandin E2 2018-08-29 2018-12-05 Morimoto, K.,Suno, R.,Hotta, Y.,Yamashita, K.,Hirata, K.,Yamamoto, M.,Narumiya, S.,Iwata, S.,Kobayashi, T. Crystal structure of the endogenous agonist-bound prostanoid receptor EP3. Nat. Chem. Biol. 2019 15 8 10 6AAF 30451685 Crystal structure of fission yeast Atg8 complexed with the helical AIM of Hfl1. 2018-07-18 2018-12-12 Liu, X.M.,Yamasaki, A.,Du, X.M.,Coffman, V.C.,Ohsumi, Y.,Nakatogawa, H.,Wu, J.Q.,Noda, N.N.,Du, L.L. Lipidation-independent vacuolar functions of Atg8 rely on its noncanonical interaction with a vacuole membrane protein Elife 2018 7 0 0 6IJF 30511676 Crystal structure of the type VI effector-immunity complex (Tae4-Tai4) from Agrobacterium tumefaciens 2018-10-09 2018-12-19 Fukuhara, S.,Nakane, T.,Yamashita, K.,Ishii, R.,Ishitani, R.,Nureki, O. Crystal structure of the Agrobacterium tumefaciens type VI effector-immunity complex. Acta Crystallogr F Struct Biol 2018 74 810 816 6AIT 30521812 Crystal structure of E. coli BepA 2018-08-24 2018-12-26 Shahrizal, M.,Daimon, Y.,Tanaka, Y.,Hayashi, Y.,Nakayama, S.,Iwaki, S.,Narita, S.I.,Kamikubo, H.,Akiyama, Y.,Tsukazaki, T. Structural Basis for the Function of the beta-Barrel Assembly-Enhancing Protease BepA. J. Mol. Biol. 2019 431 625 635 6IDP 30449688 Crystal structure of Vibrio cholerae MATE transporter VcmN in the straight form 2018-09-11 2019-01-16 Kusakizako, T.,Claxton, D.P.,Tanaka, Y.,Maturana, A.D.,Kuroda, T.,Ishitani, R.,Mchaourab, H.S.,Nureki, O. Structural Basis of H+-Dependent Conformational Change in a Bacterial MATE Transporter. Structure 2019 27 293 0 6IDR 30449688 Crystal structure of Vibrio cholerae MATE transporter VcmN in the bent form 2018-09-11 2019-01-16 Kusakizako, T.,Claxton, D.P.,Tanaka, Y.,Maturana, A.D.,Kuroda, T.,Ishitani, R.,Mchaourab, H.S.,Nureki, O. Structural Basis of H+-Dependent Conformational Change in a Bacterial MATE Transporter. Structure 2019 27 293 0 6A76 30595454 Crystal structure of the Fab fragment of B5209B, a murine monoclonal antibody specific for the fifth immunoglobulin domain (Ig5) of human ROBO1 2018-07-02 2019-01-30 Yamashita, T.,Mizohata, E.,Nagatoishi, S.,Watanabe, T.,Nakakido, M.,Iwanari, H.,Mochizuki, Y.,Nakayama, T.,Kado, Y.,Yokota, Y.,Matsumura, H.,Kawamura, T.,Kodama, T.,Hamakubo, T.,Inoue, T.,Fujitani, H.,Tsumoto, K. Affinity Improvement of a Cancer-Targeted Antibody through Alanine-Induced Adjustment of Antigen-Antibody Interface. Structure 2019 27 519 0 6IF5 Crystal structure of monkey TLR7 in complex with 2',3'-cGMP (Guanosine 2',3'-cyclic phosphate) 2018-09-18 2019-01-30 Shimizu, T. pdbx_descriptor Crystal structure of monkey TLR7 in complex with 2',3'-cGMP (Guanosine 2',3'-cyclic phosphate) To Be Published 0 0 0 0 6IU3 30742036 Crystal structure of iron transporter VIT1 with zinc ions 2018-11-27 2019-02-06 Kato, T.,Kumazaki, K.,Wada, M.,Taniguchi, R.,Nakane, T.,Yamashita, K.,Hirata, K.,Ishitani, R.,Ito, K.,Nishizawa, T.,Nureki, O. Crystal structure of plant vacuolar iron transporter VIT1. Nat Plants 2019 5 308 315 6IU4 30742036 Crystal structure of iron transporter VIT1 with cobalt ion 2018-11-27 2019-02-06 Kato, T.,Kumazaki, K.,Wada, M.,Taniguchi, R.,Nakane, T.,Yamashita, K.,Hirata, K.,Ishitani, R.,Ito, K.,Nishizawa, T.,Nureki, O. Crystal structure of plant vacuolar iron transporter VIT1. Nat Plants 2019 5 308 315 6A93 30723326 Crystal structure of 5-HT2AR in complex with risperidone 2018-07-11 2019-02-13 Kimura, K.T.,Asada, H.,Inoue, A.,Kadji, F.M.N.,Im, D.,Mori, C.,Arakawa, T.,Hirata, K.,Nomura, Y.,Nomura, N.,Aoki, J.,Iwata, S.,Shimamura, T. Structures of the 5-HT2Areceptor in complex with the antipsychotics risperidone and zotepine. Nat.Struct.Mol.Biol. 2019 26 121 128 6A94 30723326 Crystal structure of 5-HT2AR in complex with zotepine 2018-07-11 2019-02-13 Kimura, K.T.,Asada, H.,Inoue, A.,Kadji, F.M.N.,Im, D.,Mori, C.,Arakawa, T.,Hirata, K.,Nomura, Y.,Nomura, N.,Aoki, J.,Iwata, S.,Shimamura, T. Structures of the 5-HT2Areceptor in complex with the antipsychotics risperidone and zotepine. Nat.Struct.Mol.Biol. 2019 26 121 128 6AJ4 30853411 Crystal structure of the DHR-2 domain of DOCK7 in complex with Cdc42 2018-08-27 2019-03-20 Kukimoto-Niino, M.,Tsuda, K.,Ihara, K.,Mishima-Tsumagari, C.,Honda, K.,Ohsawa, N.,Shirouzu, M. Structural Basis for the Dual Substrate Specificity of DOCK7 Guanine Nucleotide Exchange Factor. Structure 2019 27 741 0 6AJL 30853411 DOCK7 mutant I1836Y complexed with Cdc42 2018-08-28 2019-03-20 Kukimoto-Niino, M.,Tsuda, K.,Ihara, K.,Mishima-Tsumagari, C.,Honda, K.,Ohsawa, N.,Shirouzu, M. Structural Basis for the Dual Substrate Specificity of DOCK7 Guanine Nucleotide Exchange Factor. Structure 2019 27 741 0 6AAC 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with mAzZLys 2018-07-18 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6AAN 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with mEtZLys 2018-07-18 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6AAQ 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with BCNLys 2018-07-18 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6AAZ 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with pNO2ZLys 2018-07-19 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6AB0 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with pAmPyLys 2018-07-19 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6AB1 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with oAzZLys 2018-07-19 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6ABK 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with TeocLys 2018-07-22 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6ABL 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with oBrZLys 2018-07-22 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6ABM 31031143 Crystal structure of Methanosarcina mazei PylRS(Y306A/Y384F) complexed with pTmdZLys 2018-07-22 2019-04-17 Yanagisawa, T.,Kuratani, M.,Seki, E.,Hino, N.,Sakamoto, K.,Yokoyama, S. Structural Basis for Genetic-Code Expansion with Bulky Lysine Derivatives by an Engineered Pyrrolysyl-tRNA Synthetase. Cell Chem Biol 2019 26 936 0 6JKC 31045564 Crystal structure of tetrameric PepTSo2 in P4212 space group 2019-02-28 2019-05-15 Nagamura, R.,Fukuda, M.,Kawamoto, A.,Matoba, K.,Dohmae, N.,Ishitani, R.,Takagi, J.,Nureki, O. Structural basis for oligomerization of the prokaryotic peptide transporter PepTSo2. Acta Crystallogr.,Sect.F 2019 75 348 358 6JKD 31045564 Crystal structure of tetrameric PepTSo2 in I4 space group 2019-02-28 2019-05-15 Nagamura, R.,Fukuda, M.,Kawamoto, A.,Matoba, K.,Dohmae, N.,Ishitani, R.,Takagi, J.,Nureki, O. Structural basis for oligomerization of the prokaryotic peptide transporter PepTSo2. Acta Crystallogr.,Sect.F 2019 75 348 358 5ZTF 31018135 Structure of Ca2+ ATPase 2018-05-03 2019-05-22 Inoue, M.,Sakuta, N.,Watanabe, S.,Zhang, Y.,Yoshikaie, K.,Tanaka, Y.,Ushioda, R.,Kato, Y.,Takagi, J.,Tsukazaki, T.,Nagata, K.,Inaba, K. Structural Basis of Sarco/Endoplasmic Reticulum Ca2+-ATPase 2b Regulation via Transmembrane Helix Interplay. Cell Rep 2019 27 1221 0 5ZTF 31018135 Structure of Ca2+ ATPase 2018-05-03 2019-05-22 Inoue, M.,Sakuta, N.,Watanabe, S.,Zhang, Y.,Yoshikaie, K.,Tanaka, Y.,Ushioda, R.,Kato, Y.,Takagi, J.,Tsukazaki, T.,Nagata, K.,Inaba, K. Structural Basis of Sarco/Endoplasmic Reticulum Ca2+-ATPase 2b Regulation via Transmembrane Helix Interplay. Cell Rep 2019 27 1221 0 5ZTF 31018135 Structure of Ca2+ ATPase 2018-05-03 2019-05-22 Inoue, M.,Sakuta, N.,Watanabe, S.,Zhang, Y.,Yoshikaie, K.,Tanaka, Y.,Ushioda, R.,Kato, Y.,Takagi, J.,Tsukazaki, T.,Nagata, K.,Inaba, K. Structural Basis of Sarco/Endoplasmic Reticulum Ca2+-ATPase 2b Regulation via Transmembrane Helix Interplay. Cell Rep 2019 27 1221 0 6JJU 31018135 Structure of Ca2+ ATPase 2019-02-27 2019-05-22 Inoue, M.,Sakuta, N.,Watanabe, S.,Zhang, Y.,Yoshikaie, K.,Tanaka, Y.,Ushioda, R.,Kato, Y.,Takagi, J.,Tsukazaki, T.,Nagata, K.,Inaba, K. Structural Basis of Sarco/Endoplasmic Reticulum Ca2+-ATPase 2b Regulation via Transmembrane Helix Interplay. Cell Rep 2019 27 1221 0 6AK8 31067051 Pre-catalytic Ternary Complex of Human DNA Polymerase Mu with Templating Adenine and Incoming Ca-8oxodGTP 2018-08-30 2019-05-29 Chang, Y.K.,Huang, Y.P.,Liu, X.X.,Ko, T.P.,Bessho, Y.,Kawano, Y.,Maestre-Reyna, M.,Wu, W.J.,Tsai, M.D. Human DNA Polymerase mu Can Use a Noncanonical Mechanism for Multiple Mn2+-Mediated Functions. J.Am.Chem.Soc. 2019 141 8489 8502 6IPF 31067051 Post-catalytic Complex of Human DNA Polymerase Mu with Templating Cytosine and Mn-8oxodGMP 2018-11-03 2019-05-29 Chang, Y.K.,Huang, Y.P.,Liu, X.X.,Ko, T.P.,Bessho, Y.,Kawano, Y.,Maestre-Reyna, M.,Wu, W.J.,Tsai, M.D. Human DNA Polymerase mu Can Use a Noncanonical Mechanism for Multiple Mn2+-Mediated Functions. J.Am.Chem.Soc. 2019 141 8489 8502 6IPG 31067051 Post-catalytic Complex of Human DNA Polymerase Mu with Templating Cytosine and Mg-8oxodGMP 2018-11-03 2019-05-29 Chang, Y.K.,Huang, Y.P.,Liu, X.X.,Ko, T.P.,Bessho, Y.,Kawano, Y.,Maestre-Reyna, M.,Wu, W.J.,Tsai, M.D. Human DNA Polymerase mu Can Use a Noncanonical Mechanism for Multiple Mn2+-Mediated Functions. J.Am.Chem.Soc. 2019 141 8489 8502 6IPK 31067051 Binary Complex of Human DNA Polymerase Mu with Mn8oxodGTP 2018-11-03 2019-05-29 Chang, Y.K.,Huang, Y.P.,Liu, X.X.,Ko, T.P.,Bessho, Y.,Kawano, Y.,Maestre-Reyna, M.,Wu, W.J.,Tsai, M.D. Human DNA Polymerase mu Can Use a Noncanonical Mechanism for Multiple Mn2+-Mediated Functions. J.Am.Chem.Soc. 2019 141 8489 8502 6E67 31080070 Structure of beta2 adrenergic receptor fused to a Gs peptide 2018-07-24 2019-06-05 Liu, X.,Xu, X.,Hilger, D.,Aschauer, P.,Tiemann, J.K.S.,Du, Y.,Liu, H.,Hirata, K.,Sun, X.,Guixa-Gonzalez, R.,Mathiesen, J.M.,Hildebrand, P.W.,Kobilka, B.K. Structural Insights into the Process of GPCR-G Protein Complex Formation. Cell 2019 177 1243 0 6A15 31182839 Structure of CYP90B1 in complex with cholesterol 2018-06-06 2019-06-12 Fujiyama, K.,Hino, T.,Kanadani, M.,Watanabe, B.,Jae Lee, H.,Mizutani, M.,Nagano, S. Structural insights into a key step of brassinosteroid biosynthesis and its inhibition. Nat.Plants 2019 5 589 594 6A16 31182839 Crystal structure of CYP90B1 in complex with uniconazole 2018-06-06 2019-06-12 Fujiyama, K.,Hino, T.,Kanadani, M.,Watanabe, B.,Jae Lee, H.,Mizutani, M.,Nagano, S. Structural insights into a key step of brassinosteroid biosynthesis and its inhibition. Nat.Plants 2019 5 589 594 6A18 31182839 Crystal structure of CYP90B1 in complex with 1,6-hexandiol 2018-06-06 2019-06-12 Fujiyama, K.,Hino, T.,Kanadani, M.,Watanabe, B.,Jae Lee, H.,Mizutani, M.,Nagano, S. Structural insights into a key step of brassinosteroid biosynthesis and its inhibition. Nat.Plants 2019 5 589 594 6J27 31162806 Crystal structure of the branched-chain polyamine synthase from Thermus thermophilus (Tth-BpsA) in complex with N4-aminopropylspermidine and 5'-methylthioadenosine 2018-12-31 2019-06-26 Hidese, R.,Toyoda, M.,Yoshino, K.I.,Fukuda, W.,Wihardja, G.A.,Kimura, S.,Fujita, J.,Niitsu, M.,Oshima, T.,Imanaka, T.,Mizohata, E.,Fujiwara, S. The C-terminal flexible region of branched-chain polyamine synthase facilitates substrate specificity and catalysis. Febs J. 2019 286 3926 3940 6JX3 31188556 Lasso peptide synthetase B1 complexed with the leader peptide 2019-04-22 2019-06-26 Sumida, T.,Dubiley, S.,Wilcox, B.,Severinov, K.,Tagami, S. Structural Basis of Leader Peptide Recognition in Lasso Peptide Biosynthesis Pathway. Acs Chem.Biol. 2019 14 1619 1627 6N48 31249059 Structure of beta2 adrenergic receptor bound to BI167107, Nanobody 6B9, and a positive allosteric modulator 2018-11-17 2019-06-26 Liu, X.,Masoudi, A.,Kahsai, A.W.,Huang, L.Y.,Pani, B.,Staus, D.P.,Shim, P.J.,Hirata, K.,Simhal, R.K.,Schwalb, A.M.,Rambarat, P.K.,Ahn, S.,Lefkowitz, R.J.,Kobilka, B. Mechanism of beta2AR regulation by an intracellular positive allosteric modulator. Science 2019 364 1283 1287 6K1Q 31263780 Human endothelin receptor type-B in complex with inverse agonist IRL2500 2019-05-11 2019-07-17 Nagiri, C.,Shihoya, W.,Inoue, A.,Kadji, F.M.N.,Aoki, J.,Nureki, O. Crystal structure of human endothelin ETBreceptor in complex with peptide inverse agonist IRL2500. Commun Biol 2019 2 236 236 6IS6 31554965 Crystal structure of Thermoplasmatales archaeon heliorhodopsin 2018-11-15 2019-09-25 Shihoya, W.,Inoue, K.,Singh, M.,Konno, M.,Hososhima, S.,Yamashita, K.,Ikeda, K.,Higuchi, A.,Izume, T.,Okazaki, S.,Hashimoto, M.,Mizutori, R.,Tomida, S.,Yamauchi, Y.,Abe-Yoshizumi, R.,Katayama, K.,Tsunoda, S.P.,Shibata, M.,Furutani, Y.,Pushkarev, A.,Beja, O.,Uchihashi, T.,Kandori, H.,Nureki, O. Crystal structure of heliorhodopsin. Nature 2019 574 132 136 6JO0 31548428 Crystal structure of the DTS-motif rhodopsin from Phaeocystis globosa virus 12T 2019-03-19 2019-10-02 Needham, D.M.,Yoshizawa, S.,Hosaka, T.,Poirier, C.,Choi, C.J.,Hehenberger, E.,Irwin, N.A.T.,Wilken, S.,Yung, C.M.,Bachy, C.,Kurihara, R.,Nakajima, Y.,Kojima, K.,Kimura-Someya, T.,Leonard, G.,Malmstrom, R.R.,Mende, D.R.,Olson, D.K.,Sudo, Y.,Sudek, S.,Richards, T.A.,DeLong, E.F.,Keeling, P.J.,Santoro, A.E.,Shirouzu, M.,Iwasaki, W.,Worden, A.Z. A distinct lineage of giant viruses brings a rhodopsin photosystem to unicellular marine predators. Proc.Natl.Acad.Sci.USA 2019 116 20574 20583 6OL9 31772027 Structure of the M5 muscarinic acetylcholine receptor (M5-T4L) bound to tiotropium 2019-04-16 2019-12-11 Vuckovic, Z.,Gentry, P.R.,Berizzi, A.E.,Hirata, K.,Varghese, S.,Thompson, G.,van der Westhuizen, E.T.,Burger, W.A.C.,Rahmani, R.,Valant, C.,Langmead, C.J.,Lindsley, C.W.,Baell, J.B.,Tobin, A.B.,Sexton, P.M.,Christopoulos, A.,Thal, D.M. Crystal structure of the M5muscarinic acetylcholine receptor. Proc.Natl.Acad.Sci.USA 2019 116 26001 26007 6KMD 31822504 Crystal structure of SeMet-phytochromobilin synthase from tomato in complex with biliverdin 2019-07-31 2019-12-18 Sugishima, M.,Wada, K.,Fukuyama, K.,Yamamoto, K. Crystal structure of phytochromobilin synthase in complex with biliverdin IX alpha , a key enzyme in the biosynthesis of phytochrome. J.Biol.Chem. 2020 295 771 782 6KME 31822504 Crystal structure of phytochromobilin synthase from tomato in complex with biliverdin 2019-07-31 2019-12-18 Sugishima, M.,Wada, K.,Fukuyama, K.,Yamamoto, K. Crystal structure of phytochromobilin synthase in complex with biliverdin IX alpha , a key enzyme in the biosynthesis of phytochrome. J.Biol.Chem. 2020 295 771 782 6JOD 31899086 Angiotensin II type 2 receptor with ligand 2019-03-20 2020-01-15 Asada, H.,Inoue, A.,Ngako Kadji, F.M.,Hirata, K.,Shiimura, Y.,Im, D.,Shimamura, T.,Nomura, N.,Iwanari, H.,Hamakubo, T.,Kusano-Arai, O.,Hisano, H.,Uemura, T.,Suno, C.,Aoki, J.,Iwata, S. The Crystal Structure of Angiotensin II Type 2 Receptor with Endogenous Peptide Hormone. Structure 2020 28 418 0 6K9Y 32005660 Crystal structure of human VAT-1 2019-06-19 2020-02-12 Watanabe, Y.,Tamura, Y.,Kakuta, C.,Watanabe, S.,Endo, T. Structural basis for interorganelle phospholipid transport mediated by VAT-1. J.Biol.Chem. 2020 295 3257 3268 6LRY 32001000 Crystal structure of human endothelin ETB receptor in complex with sarafotoxin S6b 2020-01-16 2020-02-12 Izume, T.,Miyauchi, H.,Shihoya, W.,Nureki, O. Crystal structure of human endothelin ETBreceptor in complex with sarafotoxin S6b. Biochem.Biophys.Res.Commun. 2020 528 383 388 6KR6 32051406 Crystal structure of Drosophila Piwi 2019-08-21 2020-02-19 Yamaguchi, S.,Oe, A.,Nishida, K.M.,Yamashita, K.,Kajiya, A.,Hirano, S.,Matsumoto, N.,Dohmae, N.,Ishitani, R.,Saito, K.,Siomi, H.,Nishimasu, H.,Siomi, M.C.,Nureki, O. Crystal structure of Drosophila Piwi. Nat Commun 2020 11 858 858 6LL5 32039890 Crystal structure of KpFtsZ (residues 11-316) 2019-12-21 2020-02-26 Yoshizawa, T.,Fujita, J.,Terakado, H.,Ozawa, M.,Kuroda, N.,Tanaka, S.I.,Uehara, R.,Matsumura, H. Crystal structures of the cell-division protein FtsZ from Klebsiella pneumoniae and Escherichia coli. Acta Crystallogr.,Sect.F 2020 76 86 93 6LL6 32039890 Crsyal structure of EcFtsZ (residues 11-316) 2019-12-21 2020-02-26 Yoshizawa, T.,Fujita, J.,Terakado, H.,Ozawa, M.,Kuroda, N.,Tanaka, S.I.,Uehara, R.,Matsumura, H. Crystal structures of the cell-division protein FtsZ from Klebsiella pneumoniae and Escherichia coli. Acta Crystallogr.,Sect.F 2020 76 86 93 6JO1 32157795 Structure of the CYP102A1 Haem Domain with N-(S)-Ibuprofenoyl-L-Phenylalanine 2019-03-19 2020-03-18 Stanfield, J.K.,Omura, K.,Matsumoto, A.,Kasai, C.,Sugimoto, H.,Shiro, Y.,Watanabe, Y.,Shoji, O. Crystals in Minutes: Instant On-Site Microcrystallisation of Various Flavours of the CYP102A1 (P450BM3) Haem Domain. Angew.Chem.Int.Ed.Engl. 2020 59 7611 7618 6K9S 32157795 Structure of the Carbonylruthenium Mesoporphyrin IX-Reconstituted CYP102A1 Haem Domain with N-Abietoyl-L-Tryptophan 2019-06-17 2020-03-18 Stanfield, J.K.,Omura, K.,Matsumoto, A.,Kasai, C.,Sugimoto, H.,Shiro, Y.,Watanabe, Y.,Shoji, O. Crystals in Minutes: Instant On-Site Microcrystallisation of Various Flavours of the CYP102A1 (P450BM3) Haem Domain. Angew.Chem.Int.Ed.Engl. 2020 59 7611 7618 6OBA 32483378 The beta2 adrenergic receptor bound to a negative allosteric modulator 2019-03-20 2020-03-25 Liu, X.,Kaindl, J.,Korczynska, M.,Stossel, A.,Dengler, D.,Stanek, M.,Hubner, H.,Clark, M.J.,Mahoney, J.,Matt, R.A.,Xu, X.,Hirata, K.,Shoichet, B.K.,Sunahara, R.K.,Kobilka, B.K.,Gmeiner, P. An allosteric modulator binds to a conformational hub in the beta2adrenergic receptor. Nat.Chem.Biol. 2020 16 749 755 6JZK 32284566 Structure of FimA type-1 (FimA1) prepilin of the type V major fimbrium 2019-05-02 2020-04-15 Shibata, S.,Shoji, M.,Okada, K.,Matsunami, H.,Matthews, M.M.,Imada, K.,Nakayama, K.,Wolf, M. Structure of polymerized type V pilin reveals assembly mechanism involving protease-mediated strand exchange. Nat Microbiol 2020 5 830 837 6LR7 32277083 Crystal structure of GFPuv complexed with the nanobody LaG16 at 1.67 Angstron resolution 2020-01-15 2020-04-29 Zhang, Z.,Wang, Y.,Ding, Y.,Hattori, M. Structure-based engineering of anti-GFP nanobody tandems as ultra-high-affinity reagents for purification. Sci Rep 2020 10 6239 6239 6K4J 32231207 Crystal Structure of the the CD9 2019-05-24 2020-05-13 Umeda, R.,Satouh, Y.,Takemoto, M.,Nakada-Nakura, Y.,Liu, K.,Yokoyama, T.,Shirouzu, M.,Iwata, S.,Nomura, N.,Sato, K.,Ikawa, M.,Nishizawa, T.,Nureki, O. Structural insights into tetraspanin CD9 function. Nat Commun 2020 11 1606 1606 6KCS 31960921 Crystal structure of HIRAN domain of HLTF in complex with duplex DNA 2019-06-28 2020-06-10 Hishiki, A.,Sato, M.,Hashimoto, H. Structure of HIRAN domain of human HLTF bound to duplex DNA provides structural basis for DNA unwinding to initiate replication fork regression. J.Biochem. 2020 167 597 602 6LYA 32484330 PylRS C-terminus domain mutant bound with 1-Methyl-L-tryptophan and AMPNP 2020-02-13 2020-07-08 Jiang, H.K.,Wang, Y.H.,Weng, J.H.,Kurkute, P.,Li, C.L.,Lee, M.N.,Chen, P.J.,Tseng, H.W.,Tsai, M.D.,Wang, Y.S. Probing the Active Site of Deubiquitinase USP30 with Noncanonical Tryptophan Analogues. Biochemistry 2020 59 2205 2209 7BRQ 32620754 Crystal structure of human FAM134B LIR fused to human GABARAP 2020-03-29 2020-07-08 Mochida, K.,Yamasaki, A.,Matoba, K.,Kirisako, H.,Noda, N.N.,Nakatogawa, H. Super-assembly of ER-phagy receptor Atg40 induces local ER remodeling at contacts with forming autophagosomal membranes. Nat Commun 2020 11 3306 3306 7BRU 32620754 Crystal structure of human RTN3 LIR fused to human GABARAP 2020-03-30 2020-07-08 Mochida, K.,Yamasaki, A.,Matoba, K.,Kirisako, H.,Noda, N.N.,Nakatogawa, H. Super-assembly of ER-phagy receptor Atg40 induces local ER remodeling at contacts with forming autophagosomal membranes. Nat Commun 2020 11 3306 3306 7C61 32669569 Crystal structure of 5-HT1B-BRIL and SRP2070_Fab complex 2020-05-21 2020-07-29 Miyagi, H.,Asada, H.,Suzuki, M.,Takahashi, Y.,Yasunaga, M.,Suno, C.,Iwata, S.,Saito, J.I. The discovery of a new antibody for BRIL-fused GPCR structure determination. Sci Rep 2020 10 11669 11669 7C6A 32669569 Crystal structure of AT2R-BRIL and SRP2070_Fab complex 2020-05-21 2020-07-29 Miyagi, H.,Asada, H.,Suzuki, M.,Takahashi, Y.,Yasunaga, M.,Suno, C.,Iwata, S.,Saito, J.I. The discovery of a new antibody for BRIL-fused GPCR structure determination. Sci Rep 2020 10 11669 11669 6KO5 32814772 Complex structure of Ghrelin receptor with Fab 2019-08-08 2020-08-12 Shiimura, Y.,Horita, S.,Hamamoto, A.,Asada, H.,Hirata, K.,Tanaka, M.,Mori, K.,Uemura, T.,Kobayashi, T.,Iwata, S.,Kojima, M. Structure of an antagonist-bound ghrelin receptor reveals possible ghrelin recognition mode. Nat Commun 2020 11 4160 4160 6KS2 32814772 Structure of anti-Ghrelin receptor antibody 2019-08-23 2020-08-12 Shiimura, Y.,Horita, S.,Hamamoto, A.,Asada, H.,Hirata, K.,Tanaka, M.,Mori, K.,Uemura, T.,Kobayashi, T.,Iwata, S.,Kojima, M. Structure of an antagonist-bound ghrelin receptor reveals possible ghrelin recognition mode. Nat Commun 2020 11 4160 4160 6KRZ 32796916 Crystal structure of the human adiponectin receptor 1 D208A mutant 2019-08-22 2020-08-19 Tanabe, H.,Fujii, Y.,Okada-Iwabu, M.,Iwabu, M.,Kano, K.,Kawana, H.,Hato, M.,Nakamura, Y.,Terada, T.,Kimura-Someya, T.,Shirouzu, M.,Kawano, Y.,Yamamoto, M.,Aoki, J.,Yamauchi, T.,Kadowaki, T.,Yokoyama, S. Human adiponectin receptor AdipoR1 assumes closed and open structures. Commun Biol 2020 3 446 446 6KS0 32796916 Crystal structure of the human adiponectin receptor 1 2019-08-22 2020-08-19 Tanabe, H.,Fujii, Y.,Okada-Iwabu, M.,Iwabu, M.,Kano, K.,Kawana, H.,Hato, M.,Nakamura, Y.,Terada, T.,Kimura-Someya, T.,Shirouzu, M.,Kawano, Y.,Yamamoto, M.,Aoki, J.,Yamauchi, T.,Kadowaki, T.,Yokoyama, S. Human adiponectin receptor AdipoR1 assumes closed and open structures. Commun Biol 2020 3 446 446 6KS1 32796916 Crystal structure of the human adiponectin receptor 2 2019-08-22 2020-08-19 Tanabe, H.,Fujii, Y.,Okada-Iwabu, M.,Iwabu, M.,Kano, K.,Kawana, H.,Hato, M.,Nakamura, Y.,Terada, T.,Kimura-Someya, T.,Shirouzu, M.,Kawano, Y.,Yamamoto, M.,Aoki, J.,Yamauchi, T.,Kadowaki, T.,Yokoyama, S. Human adiponectin receptor AdipoR1 assumes closed and open structures. Commun Biol 2020 3 446 446 7BUR 32725893 Chalcone synthase from Glycine max (L.) Merr (soybean) complexed with naringenin 2020-04-08 2020-08-19 Imaizumi, R.,Mameda, R.,Takeshita, K.,Kubo, H.,Sakai, N.,Nakata, S.,Takahashi, S.,Kataoka, K.,Yamamoto, M.,Nakayama, T.,Yamashita, S.,Waki, T. Crystal structure of chalcone synthase, a key enzyme for isoflavonoid biosynthesis in soybean. Proteins 2020 0 0 0 7BUS 32725893 Chalcone synthase from Glycine max (L.) Merr (soybean) 2020-04-08 2020-08-19 Imaizumi, R.,Mameda, R.,Takeshita, K.,Kubo, H.,Sakai, N.,Nakata, S.,Takahashi, S.,Kataoka, K.,Yamamoto, M.,Nakayama, T.,Yamashita, S.,Waki, T. Crystal structure of chalcone synthase, a key enzyme for isoflavonoid biosynthesis in soybean. Proteins 2020 0 0 0 6L63 32839601 Human Coagulation Factor XIIa (FXIIa) bound with the macrocyclic peptide F3 containing two (1S,2S)-2-ACHC residues 2019-10-26 2020-09-02 Katoh, T.,Sengoku, T.,Hirata, K.,Ogata, K.,Suga, H. Ribosomal synthesis and de novo discovery of bioactive foldamer peptides containing cyclic beta-amino acids. Nat.Chem. 2020 12 1081 1088 6LEO 32923628 Crystal structure of thiosulfate transporter YeeE from Spirochaeta thermophila 2019-11-26 2020-09-02 Tanaka, Y.,Yoshikaie, K.,Takeuchi, A.,Ichikawa, M.,Mori, T.,Uchino, S.,Sugano, Y.,Hakoshima, T.,Takagi, H.,Nonaka, G.,Tsukazaki, T. Crystal structure of a YeeE/YedE family protein engaged in thiosulfate uptake. Sci Adv 2020 6 0 0 6LEP 32923628 Crystal structure of thiosulfate transporter YeeE inactive mutant - C91A 2019-11-26 2020-09-02 Tanaka, Y.,Yoshikaie, K.,Takeuchi, A.,Ichikawa, M.,Mori, T.,Uchino, S.,Sugano, Y.,Hakoshima, T.,Takagi, H.,Nonaka, G.,Tsukazaki, T. Crystal structure of a YeeE/YedE family protein engaged in thiosulfate uptake. Sci Adv 2020 6 0 0 7CLJ 32951839 Crystal structure of Thermoplasmatales archaeon heliorhodopsin E108D mutant 2020-07-21 2020-09-02 Tanaka, T.,Singh, M.,Shihoya, W.,Yamashita, K.,Kandori, H.,Nureki, O. Structural basis for unique color tuning mechanism in heliorhodopsin. Biochem.Biophys.Res.Commun. 2020 533 262 267 6M20 32860739 Crystal structure of Plasmodium falciparum hexose transporter PfHT1 bound with glucose 2020-02-26 2020-09-09 Jiang, X.,Yuan, Y.,Huang, J.,Zhang, S.,Luo, S.,Wang, N.,Pu, D.,Zhao, N.,Tang, Q.,Hirata, K.,Yang, X.,Jiao, Y.,Sakata-Kato, T.,Wu, J.W.,Yan, C.,Kato, N.,Yin, H.,Yan, N. Structural Basis for Blocking Sugar Uptake into the Malaria Parasite Plasmodium falciparum. Cell 2020 183 258 0 6M2L 32860739 Crystal structure of Plasmodium falciparum hexose transporter PfHT1 bound with C3361 2020-02-27 2020-09-09 Jiang, X.,Yuan, Y.,Huang, J.,Zhang, S.,Luo, S.,Wang, N.,Pu, D.,Zhao, N.,Tang, Q.,Hirata, K.,Yang, X.,Jiao, Y.,Sakata-Kato, T.,Wu, J.W.,Yan, C.,Kato, N.,Yin, H.,Yan, N. Structural Basis for Blocking Sugar Uptake into the Malaria Parasite Plasmodium falciparum. Cell 2020 183 258 0 6L1A Crystal Structure of P450BM3 with N-enanthoyl-L-prolyl-L-phenylalanine 2019-09-28 2020-09-30 Yonemura, K.,Ariyasu, S.,Stanfield, J.K.,Suzuki, K.,Onoda, H.,Kasai, C.,Sugimoto, H.,Aiba, Y.,Watanabe, Y.,Shoji, O. Systematic Evolution of Decoy Molecules for the Highly Efficient Hydroxylation of Benzene and Small Alkanes Catalyzed by Wild-Type Cytochrome P450BM3 Acs Catalysis 2020 10 9136 9144 6LM0 33028840 The crystal structure of cyanorhodopsin (CyR) N2098R from cyanobacteria Calothrix sp. NIES-2098 2019-12-24 2020-10-21 Hasegawa, M.,Hosaka, T.,Kojima, K.,Nishimura, Y.,Nakajima, Y.,Kimura-Someya, T.,Shirouzu, M.,Sudo, Y.,Yoshizawa, S. A unique clade of light-driven proton-pumping rhodopsins evolved in the cyanobacterial lineage. Sci Rep 2020 10 16752 16752 6LM1 33028840 The crystal structure of cyanorhodopsin (CyR) N4075R from cyanobacteria Tolypothrix sp. NIES-4075 2019-12-24 2020-10-21 Hasegawa, M.,Hosaka, T.,Kojima, K.,Nishimura, Y.,Nakajima, Y.,Kimura-Someya, T.,Shirouzu, M.,Sudo, Y.,Yoshizawa, S. A unique clade of light-driven proton-pumping rhodopsins evolved in the cyanobacterial lineage. Sci Rep 2020 10 16752 16752 6M5E 33183011 Human serum albumin with cyclic peptide dalbavancin 2020-03-10 2020-11-18 Ito, S.,Senoo, A.,Nagatoishi, S.,Ohue, M.,Yamamoto, M.,Tsumoto, K.,Wakui, N. Structural Basis for the Binding Mechanism of Human Serum Albumin Complexed with Cyclic Peptide Dalbavancin. J.Med.Chem. 2020 63 14045 14053 7D7P 33154353 Crystal structure of the phosphodiesterase domain of Salpingoeca rosetta rhodopsin phosphodiesterase 2020-10-05 2020-11-18 Ikuta, T.,Shihoya, W.,Sugiura, M.,Yoshida, K.,Watari, M.,Tokano, T.,Yamashita, K.,Katayama, K.,Tsunoda, S.P.,Uchihashi, T.,Kandori, H.,Nureki, O. Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun 2020 11 5605 5605 7D7Q 33154353 Crystal structure of the transmembrane domain and linker region of Salpingoeca rosetta rhodopsin phosphodiesterase 2020-10-05 2020-11-18 Ikuta, T.,Shihoya, W.,Sugiura, M.,Yoshida, K.,Watari, M.,Tokano, T.,Yamashita, K.,Katayama, K.,Tsunoda, S.P.,Uchihashi, T.,Kandori, H.,Nureki, O. Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun 2020 11 5605 5605 6LPL 33168855 A2AR crystallized in EROCOC17+4, SS-ROX at 100 K 2020-01-11 2020-11-25 Ihara, K.,Hato, M.,Nakane, T.,Yamashita, K.,Kimura-Someya, T.,Hosaka, T.,Ishizuka-Katsura, Y.,Tanaka, R.,Tanaka, T.,Sugahara, M.,Hirata, K.,Yamamoto, M.,Nureki, O.,Tono, K.,Nango, E.,Iwata, S.,Shirouzu, M. Isoprenoid-chained lipid EROCOC 17+4 : a new matrix for membrane protein crystallization and a crystal delivery medium in serial femtosecond crystallography. Sci Rep 2020 10 19305 19305 7CJ3 33154353 Crystal structure of the transmembrane domain of Salpingoeca rosetta rhodopsin phosphodiesterase 2020-07-09 2020-11-25 Ikuta, T.,Shihoya, W.,Sugiura, M.,Yoshida, K.,Watari, M.,Tokano, T.,Yamashita, K.,Katayama, K.,Tsunoda, S.P.,Uchihashi, T.,Kandori, H.,Nureki, O. Structural insights into the mechanism of rhodopsin phosphodiesterase. Nat Commun 2020 11 5605 5605 7BTS 33093660 Structure of human beta1 adrenergic receptor bound to epinephrine and nanobody 6B9 2020-04-02 2020-12-02 Xu, X.,Kaindl, J.,Clark, M.J.,Hubner, H.,Hirata, K.,Sunahara, R.K.,Gmeiner, P.,Kobilka, B.K.,Liu, X. Binding pathway determines norepinephrine selectivity for the human beta 1 AR over beta 2 AR. Cell Res. 2021 31 569 579 7BU6 33093660 Structure of human beta1 adrenergic receptor bound to norepinephrine and nanobody 6B9 2020-04-04 2020-12-02 Xu, X.,Kaindl, J.,Clark, M.J.,Hubner, H.,Hirata, K.,Sunahara, R.K.,Gmeiner, P.,Kobilka, B.K.,Liu, X. Binding pathway determines norepinephrine selectivity for the human beta 1 AR over beta 2 AR. Cell Res. 2021 31 569 579 7BU7 33093660 Structure of human beta1 adrenergic receptor bound to BI-167107 and nanobody 6B9 2020-04-04 2020-12-02 Xu, X.,Kaindl, J.,Clark, M.J.,Hubner, H.,Hirata, K.,Sunahara, R.K.,Gmeiner, P.,Kobilka, B.K.,Liu, X. Binding pathway determines norepinephrine selectivity for the human beta 1 AR over beta 2 AR. Cell Res. 2021 31 569 579 7BVQ 33093660 Structure of human beta1 adrenergic receptor bound to carazolol 2020-04-11 2020-12-02 Xu, X.,Kaindl, J.,Clark, M.J.,Hubner, H.,Hirata, K.,Sunahara, R.K.,Gmeiner, P.,Kobilka, B.K.,Liu, X. Binding pathway determines norepinephrine selectivity for the human beta 1 AR over beta 2 AR. Cell Res. 2021 31 569 579 6LEE Crystal structure of Cypovirus Polyhedra mutant with deletion of Ala67-Ala104 2019-11-25 2020-12-09 Nguyen, T.K.,Abe, S.,Kasamatsu, M.,Maity, B.,Yamashita, K.,Hirata, K.,Kojima, M.,Ueno, T. In-Cell Engineering of Protein Crystals with Nanoporous Structures for Promoting Cascade Reactions ACS Appl Nano Mater 2021 4 1672 1681 6LKD 33542467 in meso full-length rat KMO in complex with a pyrazoyl benzoic acid inhibitor 2019-12-19 2020-12-23 Mimasu, S.,Yamagishi, H.,Kubo, S.,Kiyohara, M.,Matsuda, T.,Yahata, T.,Thomson, H.A.,Hupp, C.D.,Liu, J.,Okuda, T.,Kakefuda, K. Full-length in meso structure and mechanism of rat kynurenine 3-monooxygenase inhibition. Commun Biol 2021 4 159 159 6LKE 33542467 in meso full-length rat KMO in complex with an inhibitor identified via DNA-encoded chemical library screening 2019-12-19 2020-12-23 Mimasu, S.,Yamagishi, H.,Kubo, S.,Kiyohara, M.,Matsuda, T.,Yahata, T.,Thomson, H.A.,Hupp, C.D.,Liu, J.,Okuda, T.,Kakefuda, K. Full-length in meso structure and mechanism of rat kynurenine 3-monooxygenase inhibition. Commun Biol 2021 4 159 159 7CRZ 33402433 Crystal structure of human glucose transporter GLUT3 bound with C3361 2020-08-14 2021-01-13 Huang, J.,Yuan, Y.,Zhao, N.,Pu, D.,Tang, Q.,Zhang, S.,Luo, S.,Yang, X.,Wang, N.,Xiao, Y.,Zhang, T.,Liu, Z.,Sakata-Kato, T.,Jiang, X.,Kato, N.,Yan, N.,Yin, H. Orthosteric-allosteric dual inhibitors of PfHT1 as selective antimalarial agents. Proc.Natl.Acad.Sci.USA 2021 118 0 0 7CFF 33568487 Structure of the thermostabilized transmembrane domain of the bacterial CNNM/CorC family Mg2+ transporter in complex with Mg2+ 2020-06-25 2021-02-24 Huang, Y.,Jin, F.,Funato, Y.,Xu, Z.,Zhu, W.,Wang, J.,Sun, M.,Zhao, Y.,Yu, Y.,Miki, H.,Hattori, M. Structural basis for the Mg 2+ recognition and regulation of the CorC Mg 2+ transporter. Sci Adv 2021 7 0 0 7CFG 33568487 Structure of the transmembrane domain of the bacterial CNNM/CorC family Mg2+ transporter in complex with Mg2+ 2020-06-25 2021-02-24 Huang, Y.,Jin, F.,Funato, Y.,Xu, Z.,Zhu, W.,Wang, J.,Sun, M.,Zhao, Y.,Yu, Y.,Miki, H.,Hattori, M. Structural basis for the Mg 2+ recognition and regulation of the CorC Mg 2+ transporter. Sci Adv 2021 7 0 0 7CFH 33568487 Structure of the CBS domain of the bacterial CNNM/CorC family Mg2+ transporter 2020-06-25 2021-02-24 Huang, Y.,Jin, F.,Funato, Y.,Xu, Z.,Zhu, W.,Wang, J.,Sun, M.,Zhao, Y.,Yu, Y.,Miki, H.,Hattori, M. Structural basis for the Mg 2+ recognition and regulation of the CorC Mg 2+ transporter. Sci Adv 2021 7 0 0 7CFI 33568487 Structure of the CBS domain of the bacterial CNNM/CorC family Mg2+ transporter in complex with ATP 2020-06-25 2021-02-24 Huang, Y.,Jin, F.,Funato, Y.,Xu, Z.,Zhu, W.,Wang, J.,Sun, M.,Zhao, Y.,Yu, Y.,Miki, H.,Hattori, M. Structural basis for the Mg 2+ recognition and regulation of the CorC Mg 2+ transporter. Sci Adv 2021 7 0 0 7E4G 33790007 Crystal structure of schizorhodopsin 4 2021-02-12 2021-02-24 Higuchi, A.,Shihoya, W.,Konno, M.,Ikuta, T.,Kandori, H.,Inoue, K.,Nureki, O. Crystal structure of schizorhodopsin reveals mechanism of inward proton pumping. Proc.Natl.Acad.Sci.USA 2021 118 0 0 7CD1 33166654 Crystal structure of inhibitory Smad, Smad7 2020-06-18 2021-03-17 Murayama, K.,Kato-Murayama, M.,Itoh, Y.,Miyazono, K.,Miyazawa, K.,Shirouzu, M. Structural basis for inhibitory effects of Smad7 on TGF-beta family signaling. J.Struct.Biol. 2020 212 107661 107661 7C4S 34108205 Sphingosine-1-phosphate receptor 3 with a natural ligand. 2020-05-18 2021-06-09 Maeda, S.,Shiimura, Y.,Asada, H.,Hirata, K.,Luo, F.,Nango, E.,Tanaka, N.,Toyomoto, M.,Inoue, A.,Aoki, J.,Iwata, S.,Hagiwara, M. Endogenous agonist-bound S1PR3 structure reveals determinants of G protein-subtype bias. Sci Adv 2021 7 0 0 7DQK 34050946 A nicotine MATE transporter, Nicotiana tabacum MATE2 (NtMATE2) 2020-12-24 2021-06-09 Tanaka, Y.,Iwaki, S.,Sasaki, A.,Tsukazaki, T. Crystal structures of a nicotine MATE transporter provide insight into its mechanism of substrate transport. Febs Lett. 2021 595 1902 1913 7E5T 34121297 Crystal structure of Fsa2 2021-02-20 2021-06-30 Fujiyama, K.,Kato, N.,Re, S.,Kinugasa, K.,Watanabe, K.,Takita, R.,Nogawa, T.,Hino, T.,Osada, H.,Sugita, Y.,Takahashi, S.,Nagano, S. Molecular Basis for Two Stereoselective Diels-Alderases that Produce Decalin Skeletons*. Angew.Chem.Int.Ed.Engl. 2021 60 22401 22410 7E5U 34121297 Crystal structure of Phm7 2021-02-20 2021-06-30 Fujiyama, K.,Kato, N.,Re, S.,Kinugasa, K.,Watanabe, K.,Takita, R.,Nogawa, T.,Hino, T.,Osada, H.,Sugita, Y.,Takahashi, S.,Nagano, S. Molecular Basis for Two Stereoselective Diels-Alderases that Produce Decalin Skeletons*. Angew.Chem.Int.Ed.Engl. 2021 60 22401 22410 7E5V 34121297 Crystal structure of Phm7 in complex with inhibitor 2021-02-20 2021-06-30 Fujiyama, K.,Kato, N.,Re, S.,Kinugasa, K.,Watanabe, K.,Takita, R.,Nogawa, T.,Hino, T.,Osada, H.,Sugita, Y.,Takahashi, S.,Nagano, S. Molecular Basis for Two Stereoselective Diels-Alderases that Produce Decalin Skeletons*. Angew.Chem.Int.Ed.Engl. 2021 60 22401 22410 7CVR Structure of the CYP102A1 Haem Domain with N-Carboxybenzyl-L-Prolyl-L-Phenylalanine in complex with (S)-1-Tetralylamine 2020-08-26 2021-09-01 Shoji, O.,Stanfield, J.K. Structure of the CYP102A1 Haem Domain with N-Carboxybenzyl-L-Prolyl-L-Phenylalanine in complex with (S)-1-Tetralylamine at 1.60 Angstrom Resolution To Be Published 0 0 0 0 7E9S 34354228 Archaeal oligosaccharyltransferase AglB from Archaeoglobus fulgidus in complex with an inhibitory peptide and a dolichol-phosphate 2021-03-05 2021-09-08 Taguchi, Y.,Yamasaki, T.,Ishikawa, M.,Kawasaki, Y.,Yukimura, R.,Mitani, M.,Hirata, K.,Kohda, D. The structure of an archaeal oligosaccharyltransferase provides insight into the strict exclusion of proline from the N-glycosylation sequon. Commun Biol 2021 4 941 941 7COO Structure of the CYP102A1 Haem Domain with N-Carboxybenzyl-L-Prolyl-L-Phenylalanine in complex with Cyclohexylamine 2020-08-04 2021-09-15 Shoji, O.,Stanfield, J.K. Structure of the CYP102A1 Haem Domain with N-Carboxybenzyl-L-Prolyl-L-Phenylalanine in complex with Cyclohexylamine at 1.49 Angstrom Resolution To Be Published 0 0 0 0 7D0U Structure of the CYP102A1 Haem Domain with N-enanthyl-L-prolyl-L-phenylalanine in complex with Ethylamine 2020-09-11 2021-09-15 Shoji, O.,Stanfield, J.K. Structure of the CYP102A1 Haem Domain with N-enanthyl-L-prolyl-L-phenylalanine in complex with Ethylamine at 1.68 Angstrom Resolution To Be Published 0 0 0 0 7DVH 34559526 Crystal structure of the computationally designed reDPBB_sym4 protein 2021-01-13 2021-09-29 Yagi, S.,Padhi, A.K.,Vucinic, J.,Barbe, S.,Schiex, T.,Nakagawa, R.,Simoncini, D.,Zhang, K.Y.J.,Tagami, S. Seven Amino Acid Types Suffice to Create the Core Fold of RNA Polymerase. J.Am.Chem.Soc. 2021 143 15998 16006 7D9Z 34625749 Crystal structure of anti-basigin Fab fragment 2020-10-14 2021-10-20 Sakuragi, T.,Kanai, R.,Tsutsumi, A.,Narita, H.,Onishi, E.,Nishino, K.,Miyazaki, T.,Baba, T.,Kosako, H.,Nakagawa, A.,Kikkawa, M.,Toyoshima, C.,Nagata, S. The tertiary structure of the human Xkr8-Basigin complex that scrambles phospholipids at plasma membranes. Nat.Struct.Mol.Biol. 2021 28 825 834 7DAA 34625749 Crystal structure of basigin complexed with anti-basigin Fab fragment 2020-10-16 2021-10-20 Sakuragi, T.,Kanai, R.,Tsutsumi, A.,Narita, H.,Onishi, E.,Nishino, K.,Miyazaki, T.,Baba, T.,Kosako, H.,Nakagawa, A.,Kikkawa, M.,Toyoshima, C.,Nagata, S. The tertiary structure of the human Xkr8-Basigin complex that scrambles phospholipids at plasma membranes. Nat.Struct.Mol.Biol. 2021 28 825 834 7VES 34753804 Crystal Structure of nucleotide-free Irgb6 2021-09-10 2021-11-03 Saijo-Hamano, Y.,Sherif, A.A.,Pradipta, A.,Sasai, M.,Sakai, N.,Sakihama, Y.,Yamamoto, M.,Standley, D.M.,Nitta, R. Structural basis of membrane recognition of Toxoplasma gondii vacuole by Irgb6. Life Sci Alliance 2022 5 0 0 7VEX 34753804 Crystal Structure of GTP-bound Irgb6 2021-09-10 2021-11-03 Saijo-Hamano, Y.,Sherif, A.A.,Pradipta, A.,Sasai, M.,Sakai, N.,Sakihama, Y.,Yamamoto, M.,Standley, D.M.,Nitta, R. Structural basis of membrane recognition of Toxoplasma gondii vacuole by Irgb6. Life Sci Alliance 2022 5 0 0 7FBP 34723512 FXIIa-cMCoFx1 complex 2021-07-12 2021-11-10 Liu, W.,de Veer, S.J.,Huang, Y.H.,Sengoku, T.,Okada, C.,Ogata, K.,Zdenek, C.N.,Fry, B.G.,Swedberg, J.E.,Passioura, T.,Craik, D.J.,Suga, H. An Ultrapotent and Selective Cyclic Peptide Inhibitor of Human beta-Factor XIIa in a Cyclotide Scaffold. J.Am.Chem.Soc. 2021 143 18481 18489 7E3E 33759310 Crystal structure of Trypanosoma brucei cathepsin B R91C/T223C mutant 2021-02-08 2021-12-15 Abe, S.,Pham, T.T.,Negishi, H.,Yamashita, K.,Hirata, K.,Ueno, T. Design of an In-Cell Protein Crystal for the Environmentally Responsive Construction of a Supramolecular Filament. Angew.Chem.Int.Ed.Engl. 2021 60 12341 12345 7E3F 33759310 Crystal structure of Trypanosoma brucei cathepsin B Y217C/S275C mutant 2021-02-08 2021-12-15 Abe, S.,Pham, T.T.,Negishi, H.,Yamashita, K.,Hirata, K.,Ueno, T. Design of an In-Cell Protein Crystal for the Environmentally Responsive Construction of a Supramolecular Filament. Angew.Chem.Int.Ed.Engl. 2021 60 12341 12345 7E3G 33759310 Crystal structure of Trypanosoma brucei cathepsin B R91C/T223C mutant in the living cell 2021-02-08 2021-12-15 Abe, S.,Pham, T.T.,Negishi, H.,Yamashita, K.,Hirata, K.,Ueno, T. Design of an In-Cell Protein Crystal for the Environmentally Responsive Construction of a Supramolecular Filament. Angew.Chem.Int.Ed.Engl. 2021 60 12341 12345 7ECD 34964897 Crystal structure of Tam41 from Firmicutes bacterium, complex with CTP-Mg 2021-03-12 2022-01-19 Kimura, K.,Kawai, F.,Kubota-Kawai, H.,Watanabe, Y.,Tomii, K.,Kojima, R.,Hirata, K.,Yamamori, Y.,Endo, T.,Tamura, Y. Crystal structure of Tam41 cytidine diphosphate diacylglycerol synthase from a Firmicutes bacterium. J.Biochem. 2022 171 429 441 7EJN 34857854 Complex Structure of HLA-A*2402 with the Peptide from HCoV(CoV-HKU1) spike protein 2021-04-02 2022-01-26 Shimizu, K.,Iyoda, T.,Sanpei, A.,Nakazato, H.,Okada, M.,Ueda, S.,Kato-Murayama, M.,Murayama, K.,Shirouzu, M.,Harada, N.,Hidaka, M.,Fujii, S.I. Identification of TCR repertoires in functionally competent cytotoxic T cells cross-reactive to SARS-CoV-2. Commun Biol 2021 4 1365 1365 7WEW Structure of adenylation domain of epsilon-poly-L-lysine synthase 2021-12-24 2022-02-09 Okamoto, T.,Yamanaka, K.,Hamano, Y.,Nagano, S.,Hino, T. Crystal structure of the adenylation domain from an epsilon-poly-l-lysine synthetase provides molecular mechanism for substrate specificity Biochem.Biophys.Res.Commun. 2022 596 43 48 7VWS 35235232 Carbazole Prenyl Transferase LvqB4 2021-11-11 2022-03-23 Nagata, R.,Suemune, H.,Kobayashi, M.,Shinada, T.,Shin-Ya, K.,Nishiyama, M.,Hino, T.,Sato, Y.,Kuzuyama, T.,Nagano, S. Structural Basis for the Prenylation Reaction of Carbazole-Containing Natural Products Catalyzed by Squalene Synthase-Like Enzymes. Angew.Chem.Int.Ed.Engl. 2022 61 0 0 7VWT 35235232 Carbazole Prenyl Transferase CqsB4 2021-11-11 2022-03-23 Nagata, R.,Suemune, H.,Kobayashi, M.,Shinada, T.,Shin-Ya, K.,Nishiyama, M.,Hino, T.,Sato, Y.,Kuzuyama, T.,Nagano, S. Structural Basis for the Prenylation Reaction of Carbazole-Containing Natural Products Catalyzed by Squalene Synthase-Like Enzymes. Angew.Chem.Int.Ed.Engl. 2022 61 0 0 7WBT 35090055 Crystal structure of bovine NLRP9 2021-12-17 2022-04-06 Kamitsukasa, Y.,Nakano, K.,Murakami, K.,Hirata, K.,Yamamoto, M.,Shimizu, T.,Ohto, U. The structure of NLRP9 reveals a unique C-terminal region with putative regulatory function. Febs Lett. 2022 596 876 885 7EQE 35429224 Crystal Structure of a transcription factor 2021-05-01 2022-04-27 Tsugita, A.,Uehara, S.,Matsui, T.,Yokoyama, T.,Ostash, I.,Deneka, M.,Yalamanchili, S.,Bennett, C.S.,Tanaka, Y.,Ostash, B. The carbohydrate tail of landomycin A is responsible for its interaction with the repressor protein LanK. Febs J. 2022 0 0 0 7SPS 35552392 Crystal structure of human glucose transporter GLUT3 bound with exofacial inhibitor SA47 2021-11-03 2022-05-18 Wang, N.,Zhang, S.,Yuan, Y.,Xu, H.,Defossa, E.,Matter, H.,Besenius, M.,Derdau, V.,Dreyer, M.,Halland, N.,He, K.H.,Petry, S.,Podeschwa, M.,Tennagels, N.,Jiang, X.,Yan, N. Molecular basis for inhibiting human glucose transporters by exofacial inhibitors. Nat Commun 2022 13 2632 2632 7SPT 35552392 Crystal structure of exofacial state human glucose transporter GLUT3 2021-11-03 2022-05-18 Wang, N.,Zhang, S.,Yuan, Y.,Xu, H.,Defossa, E.,Matter, H.,Besenius, M.,Derdau, V.,Dreyer, M.,Halland, N.,He, K.H.,Petry, S.,Podeschwa, M.,Tennagels, N.,Jiang, X.,Yan, N. Molecular basis for inhibiting human glucose transporters by exofacial inhibitors. Nat Commun 2022 13 2632 2632 7VPC 35133719 Neryl diphosphate synthase from Solanum lycopersicum 2021-10-15 2022-05-18 Kutsukawa, R.,Imaizumi, R.,Suenaga-Hiromori, M.,Takeshita, K.,Sakai, N.,Misawa, S.,Yamamoto, M.,Yamaguchi, H.,Miyagi-Inoue, Y.,Waki, T.,Kataoka, K.,Nakayama, T.,Yamashita, S.,Takahashi, S. Structure-based engineering of a short-chain cis-prenyltransferase to biosynthesize nonnatural all-cis-polyisoprenoids: molecular mechanisms for primer substrate recognition and ultimate product chain-length determination. Febs J. 2022 0 0 0 7X7O 35543180 SARS-CoV-2 spike RBD in complex with neutralizing antibody UT28K 2022-03-10 2022-05-25 Ozawa, T.,Tani, H.,Anraku, Y.,Kita, S.,Igarashi, E.,Saga, Y.,Inasaki, N.,Kawasuji, H.,Yamada, H.,Sasaki, S.I.,Somekawa, M.,Sasaki, J.,Hayakawa, Y.,Yamamoto, Y.,Morinaga, Y.,Kurosawa, N.,Isobe, M.,Fukuhara, H.,Maenaka, K.,Hashiguchi, T.,Kishi, H.,Kitajima, I.,Saito, S.,Niimi, H. Novel super-neutralizing antibody UT28K is capable of protecting against infection from a wide variety of SARS-CoV-2 variants. Mabs 2022 14 2072455 2072455 7WAG 35660157 Crystal structure of MurJ squeezed form 2021-12-14 2022-06-01 Kohga, H.,Mori, T.,Tanaka, Y.,Yoshikaie, K.,Taniguchi, K.,Fujimoto, K.,Fritz, L.,Schneider, T.,Tsukazaki, T. Crystal structure of the lipid flippase MurJ in a ""squeezed"" form distinct from its inward- and outward-facing forms. Structure 2022 0 0 0 7WAW 35660157 MurJ inward closed form 2021-12-15 2022-06-01 Kohga, H.,Mori, T.,Tanaka, Y.,Yoshikaie, K.,Taniguchi, K.,Fujimoto, K.,Fritz, L.,Schneider, T.,Tsukazaki, T. Crystal structure of the lipid flippase MurJ in a ""squeezed"" form distinct from its inward- and outward-facing forms. Structure 2022 0 0 0 7WAX 35660157 MurJ inward occluded form 2021-12-15 2022-06-01 Kohga, H.,Mori, T.,Tanaka, Y.,Yoshikaie, K.,Taniguchi, K.,Fujimoto, K.,Fritz, L.,Schneider, T.,Tsukazaki, T. Crystal structure of the lipid flippase MurJ in a ""squeezed"" form distinct from its inward- and outward-facing forms. Structure 2022 0 0 0 7F0V Structure of the M305I mutant of CueO 2021-06-07 2022-06-15 Kawano, T.K.,Takata, S.T.,Sakai, N.S.,Imaizumi, R.I.,Nakata, S.N.,Takeshita, K.T.,Yamashita, S.Y.,Sakurai, T.S.,Kataoka, K.K. Structure of the M305I mutant of CueO To Be Published 0 0 0 0 7F19 Structure of the G304E mutant of CueO 2021-06-08 2022-06-15 Takata, S.T.,Kawano, T.K.,Nakata, S.N.,Takado, K.T.,Imaizumi, R.I.,Sakai, N.S.,Takeshita, K.T.,Yamashita, S.Y.,Sakurai, T.S.,Kataoka, K.K. Structure of the G304E mutant of CueO To Be Published 0 0 0 0 7FEE 35637350 Crystal Structure of protein l 2021-07-19 2022-06-15 Yang, X.,Wang, X.,Xu, Z.,Wu, C.,Zhou, Y.,Wang, Y.,Lin, G.,Li, K.,Wu, M.,Xia, A.,Liu, J.,Cheng, L.,Zou, J.,Yan, W.,Shao, Z.,Yang, S. Molecular mechanism of allosteric modulation for the cannabinoid receptor CB1. Nat.Chem.Biol. 2022 0 0 0 7F2X Crystal structure of MEK1 C121S mutant 2021-06-15 2022-06-22 Kubota, Y.,Fujioka, Y.,Patil, A.,Takagi, Y.,Matsubara, D.,Iijima, M.,Momose, I.,Naka, R.,Nakai, K.,Noda, N.N.,Takekawa, M. Qualitative differences in disease-associated MEK mutants reveal molecular signatures and aberrant signaling-crosstalk in cancer To Be Published 0 0 0 0 7W7B Heme exporter HrtBA in complex with protoporphyrin IX containing manganese(III), high resolution data 2021-12-04 2022-06-22 Nakamura, H.,Hisano, T.,Rahman, M.M.,Tosha, T.,Shirouzu, M.,Shiro, Y. heme exporter complexed with AMPPNP To Be Published 0 0 0 0 7F5Q An active enzyme from the plant Viola yedoensis 2021-06-22 2022-06-29 Hu, S.,Sahili, A.,Lescar, J. An active enzyme from the plant Viola yedoensis To Be Published 0 0 0 0 7V3D 35739195 Complex structure of serine hydroxymethyltransferase from Enterococcus faecium and its inhibitor 2021-08-10 2022-07-06 Makino, Y.,Oe, C.,Iwama, K.,Suzuki, S.,Nishiyama, A.,Hasegawa, K.,Okuda, H.,Hirata, K.,Ueno, M.,Kawaji, K.,Sasano, M.,Usui, E.,Hosaka, T.,Yabuki, Y.,Shirouzu, M.,Katsumi, M.,Murayama, K.,Hayashi, H.,Kodama, E.N. Serine hydroxymethyltransferase as a potential target of antibacterial agents acting synergistically with one-carbon metabolism-related inhibitors. Commun Biol 2022 5 619 619 7VMW Crystal structure of LimF prenyltransferase bound with a peptide substrate and GSPP 2021-10-09 2022-08-03 Zhang, Y.,Hamada, K.,Nguyen, D.T.,Inoue, S.,Satake, M.,Kobayashi, S.,Okada, C.,Ogata, K.,Okada, M.,Sengoku, T.,Goto, Y.,Suga, H. LimF: A versatile prenyltransferase for histidine C-geranylation and tyrosine O-geranylation To Be Published 0 0 0 0